[ { "name": "SC_RNA_COUNTER_CS", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS", "type": "pipeline", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": null, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/fork0/split", "names": [] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/fork0/join", "names": [] }, "chunks": [], "bindings": { "Argument": [ { "id": "reference_path", "type": "path", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "reference_path", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/mm10_premrna_v1.0_pcg-only", "waiting": false }, { "id": "recovered_cells", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "recovered_cells", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": 5000, "waiting": false }, { "id": "no_secondary_analysis", "type": "bool", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "no_secondary_analysis", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": false, "waiting": false }, { "id": "r1_length", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "r1_length", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "r2_length", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "r2_length", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "sample_def", "type": "map", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "sample_def", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": [ { "fastq_mode": "ILMN_BCL2FASTQ", "gem_group": null, "lanes": null, "read_path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX", "sample_indices": [ "any" ], "sample_names": [ "G171C" ] } ], "waiting": false }, { "id": "sample_desc", "type": "string", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "sample_desc", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "", "waiting": false }, { "id": "force_cells", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "force_cells", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "chemistry", "type": "string", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "chemistry", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "auto", "waiting": false }, { "id": "feature_reference", "type": "csv", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "feature_reference", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "sample_id", "type": "string", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "sample_id", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "10X_G171C_pcgonly_UseThis", "waiting": false } ], "Return": [ { "id": "cloupe", "type": "cloupe", "valexp": "CLOUPE_PREPROCESS.output_for_cloupe", "mode": "reference", "output": "output_for_cloupe", "sweep": false, "sweepRootId": "cloupe", "node": "CLOUPE_PREPROCESS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/CLOUPE_PREPROCESS/fork0/join-u55c7844064/files/output_for_cloupe.cloupe", "waiting": false }, { "id": "possorted_genome_bam_index", "type": "bam.bai", "valexp": "SC_RNA_COUNTER.possorted_genome_bam_index", "mode": "reference", "output": "index", "sweep": false, "sweepRootId": "possorted_genome_bam_index", "node": "SORT_BY_POS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/join-u55c78435e3/files/output.bam.bai", "waiting": false }, { "id": "metrics_summary", "type": "csv", "valexp": "SC_RNA_COUNTER.metrics_summary_csv", "mode": "reference", "output": "metrics_summary_csv", "sweep": false, "sweepRootId": "metrics_summary", "node": "SUMMARIZE_REPORTS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SUMMARIZE_REPORTS/fork0/chnk0-u55c784404b/files/metrics_summary_csv.csv", "waiting": false }, { "id": "raw_feature_bc_matrix_h5", "type": "h5", "valexp": "SC_RNA_COUNTER.raw_gene_bc_matrices_h5", "mode": "reference", "output": "matrices_h5", "sweep": false, "sweepRootId": "raw_feature_bc_matrix_h5", "node": "COUNT_GENES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/join-u55c78435e4/files/matrices_h5.h5", "waiting": false }, { "id": "filtered_feature_bc_matrix", "type": "path", "valexp": "SC_RNA_COUNTER.filtered_gene_bc_matrices_mex", "mode": "reference", "output": "filtered_matrices_mex", "sweep": false, "sweepRootId": "filtered_feature_bc_matrix", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_matrices_mex", "waiting": false }, { "id": "analysis", "type": "path", "valexp": "SC_RNA_COUNTER.analysis_csv", "mode": "reference", "output": "analysis_csv", "sweep": false, "sweepRootId": "analysis", "node": "SUMMARIZE_ANALYSIS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/SUMMARIZE_ANALYSIS/fork0/join-u55c7843f2f/files/analysis_csv", "waiting": false }, { "id": "crispr_analysis", "type": "path", "valexp": "SC_RNA_COUNTER.crispr_analysis", "mode": "reference", "output": "crispr_analysis", "sweep": false, "sweepRootId": "crispr_analysis", "node": "SUMMARIZE_CRISPR_ANALYSIS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "feature_reference", "type": "csv", "valexp": "SC_RNA_COUNTER.feature_reference", "mode": "reference", "output": "feature_reference", "sweep": false, "sweepRootId": "feature_reference", "node": "SUMMARIZE_REPORTS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SUMMARIZE_REPORTS/fork0/chnk0-u55c784404b/files/feature_reference.csv", "waiting": false }, { "id": "possorted_genome_bam", "type": "bam", "valexp": "SC_RNA_COUNTER.possorted_genome_bam", "mode": "reference", "output": "output", "sweep": false, "sweepRootId": "possorted_genome_bam", "node": "SORT_BY_POS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/join-u55c78435e3/files/output.bam", "waiting": false }, { "id": "web_summary", "type": "html", "valexp": "SC_RNA_COUNTER.web_summary", "mode": "reference", "output": "web_summary", "sweep": false, "sweepRootId": "web_summary", "node": "SUMMARIZE_REPORTS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SUMMARIZE_REPORTS/fork0/chnk0-u55c784404b/files/web_summary.html", "waiting": false }, { "id": "raw_feature_bc_matrix", "type": "path", "valexp": "SC_RNA_COUNTER.raw_gene_bc_matrices_mex", "mode": "reference", "output": "matrices_mex", "sweep": false, "sweepRootId": "raw_feature_bc_matrix", "node": "COUNT_GENES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/join-u55c78435e4/files/matrices_mex", "waiting": false }, { "id": "filtered_feature_bc_matrix_h5", "type": "h5", "valexp": "SC_RNA_COUNTER.filtered_gene_bc_matrices_h5", "mode": "reference", "output": "filtered_matrices_h5", "sweep": false, "sweepRootId": "filtered_feature_bc_matrix_h5", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_matrices_h5.h5", "waiting": false }, { "id": "molecule_info", "type": "h5", "valexp": "SC_RNA_COUNTER.molecule_info", "mode": "reference", "output": "output", "sweep": false, "sweepRootId": "molecule_info", "node": "REPORT_MOLECULES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/join-u55c7843d69/files/output.h5", "waiting": false } ] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.CLOUPE_PREPROCESS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS" } ], "stagecodeLang": "", "stagecodeCmd": "" }, { "name": "CLOUPE_PREPROCESS", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.CLOUPE_PREPROCESS", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/CLOUPE_PREPROCESS", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/CLOUPE_PREPROCESS", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/CLOUPE_PREPROCESS/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/CLOUPE_PREPROCESS/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/CLOUPE_PREPROCESS/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/CLOUPE_PREPROCESS/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "aggregation_csv", "type": "csv", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "aggregation_csv", "node": "CLOUPE_PREPROCESS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "no_secondary_analysis", "type": "bool", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "no_secondary_analysis", "node": "CLOUPE_PREPROCESS", "matchedFork": 0, "value": false, "waiting": false }, { "id": "sample_id", "type": "string", "valexp": "self.sample_id", "mode": "value", "output": "", "sweep": false, "sweepRootId": "sample_id", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "10X_G171C_pcgonly_UseThis", "waiting": false }, { "id": "sample_desc", "type": "string", "valexp": "self.sample_desc", "mode": "value", "output": "", "sweep": false, "sweepRootId": "sample_desc", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "", "waiting": false }, { "id": "analysis", "type": "path", "valexp": "SC_RNA_COUNTER.analysis", "mode": "reference", "output": "analysis", "sweep": false, "sweepRootId": "analysis", "node": "SUMMARIZE_ANALYSIS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/SUMMARIZE_ANALYSIS/fork0/join-u55c7843f2f/files/analysis", "waiting": false }, { "id": "gem_group_index_json", "type": "json", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "gem_group_index_json", "node": "CLOUPE_PREPROCESS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "pipestance_type", "type": "string", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "pipestance_type", "node": "CLOUPE_PREPROCESS", "matchedFork": 0, "value": "SC_RNA_COUNTER_CS", "waiting": false }, { "id": "filtered_gene_bc_matrices_h5", "type": "h5", "valexp": "SC_RNA_COUNTER.filtered_gene_bc_matrices_h5", "mode": "reference", "output": "filtered_matrices_h5", "sweep": false, "sweepRootId": "filtered_gene_bc_matrices_h5", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_matrices_h5.h5", "waiting": false }, { "id": "metrics_json", "type": "json", "valexp": "SC_RNA_COUNTER.metrics_summary_json", "mode": "reference", "output": "metrics_summary_json", "sweep": false, "sweepRootId": "metrics_json", "node": "SUMMARIZE_REPORTS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SUMMARIZE_REPORTS/fork0/chnk0-u55c784404b/files/metrics_summary_json.json", "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.CLOUPE_PREPROCESS" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/cloupe/cloupe_preprocess" }, { "name": "EXPAND_SAMPLE_DEF", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/EXPAND_SAMPLE_DEF", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/EXPAND_SAMPLE_DEF", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/EXPAND_SAMPLE_DEF/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/EXPAND_SAMPLE_DEF/fork0/split", "names": [ "args", "complete", "stage_defs" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/EXPAND_SAMPLE_DEF/fork0/join", "names": [ "args", "chunk_defs", "complete", "outs" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/EXPAND_SAMPLE_DEF/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "raw_sample_def", "type": "map", "valexp": "self.sample_def", "mode": "value", "output": "", "sweep": false, "sweepRootId": "sample_def", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": [ { "fastq_mode": "ILMN_BCL2FASTQ", "gem_group": null, "lanes": null, "read_path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX", "sample_indices": [ "any" ], "sample_names": [ "G171C" ] } ], "waiting": false } ], "Return": [] } } ], "edges": [], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/common/expand_sample_def" }, { "name": "SC_RNA_COUNTER", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER", "type": "pipeline", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": null, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/fork0/split", "names": [] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/fork0/join", "names": [] }, "chunks": [], "bindings": { "Argument": [ { "id": "no_secondary_analysis", "type": "bool", "valexp": "self.no_secondary_analysis", "mode": "value", "output": "", "sweep": false, "sweepRootId": "no_secondary_analysis", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": false, "waiting": false }, { "id": "feature_reference", "type": "csv", "valexp": "self.feature_reference", "mode": "value", "output": "", "sweep": false, "sweepRootId": "feature_reference", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "disable_preflight_local", "type": "bool", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "disable_preflight_local", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": false, "waiting": false }, { "id": "align", "type": "map", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "align", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": { "aligner": "star", "high_conf_mapq": null }, "waiting": false }, { "id": "sample_def", "type": "map", "valexp": "EXPAND_SAMPLE_DEF.sample_def", "mode": "reference", "output": "sample_def", "sweep": false, "sweepRootId": "sample_def", "node": "EXPAND_SAMPLE_DEF", "matchedFork": 0, "value": [ { "gem_group": null, "lanes": null, "sample_names": [ "G171C" ], "sample_indices": [ "any" ], "fastq_mode": "ILMN_BCL2FASTQ", "read_path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX" } ], "waiting": false }, { "id": "force_cells", "type": "int", "valexp": "self.force_cells", "mode": "value", "output": "", "sweep": false, "sweepRootId": "force_cells", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "cell_barcodes", "type": "json", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "cell_barcodes", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "num_reads_to_check_barcode", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_reads_to_check_barcode", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "sample_id", "type": "string", "valexp": "self.sample_id", "mode": "value", "output": "", "sweep": false, "sweepRootId": "sample_id", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "10X_G171C_pcgonly_UseThis", "waiting": false }, { "id": "r1_length", "type": "int", "valexp": "self.r1_length", "mode": "value", "output": "", "sweep": false, "sweepRootId": "r1_length", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "custom_chemistry_def", "type": "map", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "custom_chemistry_def", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "barcode_confidence_threshold", "type": "float", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "barcode_confidence_threshold", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": 0.975, "waiting": false }, { "id": "r2_length", "type": "int", "valexp": "self.r2_length", "mode": "value", "output": "", "sweep": false, "sweepRootId": "r2_length", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "annotation_params", "type": "map", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "annotation_params", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "chemistry_name", "type": "string", "valexp": "self.chemistry", "mode": "value", "output": "", "sweep": false, "sweepRootId": "chemistry", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "auto", "waiting": false }, { "id": "recovered_cells", "type": "int", "valexp": "self.recovered_cells", "mode": "value", "output": "", "sweep": false, "sweepRootId": "recovered_cells", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": 5000, "waiting": false }, { "id": "filter_umis", "type": "bool", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "filter_umis", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": true, "waiting": false }, { "id": "sample_desc", "type": "string", "valexp": "self.sample_desc", "mode": "value", "output": "", "sweep": false, "sweepRootId": "sample_desc", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "", "waiting": false }, { "id": "primers", "type": "map", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "primers", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": [ { "name": "P5", "seq": "AATGATACGGCGACCACCGAGATCT" }, { "name": "P7", "seq": "CAAGCAGAAGACGGCATACGAGAT" }, { "name": "R1", "seq": "ACACTCTTTCCCTACACGACG" }, { "name": "R2", "seq": "GTGACTGGAGTTCAGACGTGTG" }, { "name": "switch_oligo", "seq": "AAGCAGTGGTATCAACGCAGAGTACATGGG" }, { "name": "polyA", "seq": "AAAAAAAAAAAAAAAAAAAA" } ], "waiting": false }, { "id": "subsample_rate", "type": "float", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "subsample_rate", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": 1, "waiting": false }, { "id": "initial_reads", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "initial_reads", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "library_type_filter", "type": "string", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "library_type_filter", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "align_threads", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "align_threads", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": 4, "waiting": false }, { "id": "retain_fastqs", "type": "bool", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "retain_fastqs", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": false, "waiting": false }, { "id": "allowed_chems", "type": "string", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "allowed_chems", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": [ "auto", "custom", "threeprime", "fiveprime", "SC3P_auto", "SC5P_auto", "SC3Pv1", "SC3Pv2", "SC3Pv3", "SC5P-PE", "SC5P-R2", "SC5P-R1", "SC-FB" ], "waiting": false }, { "id": "barcode_compatibility_cutoff", "type": "float", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "barcode_compatibility_cutoff", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "reference_path", "type": "path", "valexp": "self.reference_path", "mode": "value", "output": "", "sweep": false, "sweepRootId": "reference_path", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/mm10_premrna_v1.0_pcg-only", "waiting": false }, { "id": "umi_min_qual_threshold", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "umi_min_qual_threshold", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": 10, "waiting": false } ], "Return": [ { "id": "raw_gene_bc_matrices_mex", "type": "path", "valexp": "_BASIC_SC_RNA_COUNTER.raw_gene_bc_matrices_mex", "mode": "reference", "output": "matrices_mex", "sweep": false, "sweepRootId": "raw_gene_bc_matrices_mex", "node": "COUNT_GENES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/join-u55c78435e4/files/matrices_mex", "waiting": false }, { "id": "analysis", "type": "path", "valexp": "SC_RNA_ANALYZER.analysis", "mode": "reference", "output": "analysis", "sweep": false, "sweepRootId": "analysis", "node": "SUMMARIZE_ANALYSIS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/SUMMARIZE_ANALYSIS/fork0/join-u55c7843f2f/files/analysis", "waiting": false }, { "id": "gem_groups", "type": "int", "valexp": "_BASIC_SC_RNA_COUNTER.gem_groups", "mode": "reference", "output": "gem_groups", "sweep": false, "sweepRootId": "gem_groups", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": [ 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1 ], "waiting": false }, { "id": "raw_gene_bc_matrices_h5", "type": "h5", "valexp": "_BASIC_SC_RNA_COUNTER.raw_gene_bc_matrices_h5", "mode": "reference", "output": "matrices_h5", "sweep": false, "sweepRootId": "raw_gene_bc_matrices_h5", "node": "COUNT_GENES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/join-u55c78435e4/files/matrices_h5.h5", "waiting": false }, { "id": "filtered_gene_bc_matrices_h5", "type": "h5", "valexp": "_BASIC_SC_RNA_COUNTER.filtered_gene_bc_matrices_h5", "mode": "reference", "output": "filtered_matrices_h5", "sweep": false, "sweepRootId": "filtered_gene_bc_matrices_h5", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_matrices_h5.h5", "waiting": false }, { "id": "analysis_csv", "type": "path", "valexp": "SC_RNA_ANALYZER.analysis_csv", "mode": "reference", "output": "analysis_csv", "sweep": false, "sweepRootId": "analysis_csv", "node": "SUMMARIZE_ANALYSIS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/SUMMARIZE_ANALYSIS/fork0/join-u55c7843f2f/files/analysis_csv", "waiting": false }, { "id": "barcode_whitelist", "type": "string", "valexp": "SETUP_CHUNKS.barcode_whitelist", "mode": "reference", "output": "barcode_whitelist", "sweep": false, "sweepRootId": "barcode_whitelist", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": "3M-february-2018", "waiting": false }, { "id": "fastq_chunks", "type": "map", "valexp": "SETUP_CHUNKS.chunks", "mode": "reference", "output": "chunks", "sweep": false, "sweepRootId": "fastq_chunks", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": [ { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX/G171C_S2_L007_I1_001.fastq.gz", "I2": null, "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX/G171C_S2_L007_R1_001.fastq.gz", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX/G171C_S2_L007_R2_001.fastq.gz" }, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "reads_interleaved": false } ], "waiting": false }, { "id": "chemistry_def", "type": "map", "valexp": "SETUP_CHUNKS.chemistry_def", "mode": "reference", "output": "chemistry_def", "sweep": false, "sweepRootId": "chemistry_def", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "waiting": false }, { "id": "filtered_barcodes", "type": "csv", "valexp": "_BASIC_SC_RNA_COUNTER.filtered_barcodes", "mode": "reference", "output": "filtered_barcodes", "sweep": false, "sweepRootId": "filtered_barcodes", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_barcodes.csv", "waiting": false }, { "id": "chemistry_type", "type": "string", "valexp": "CHEMISTRY_DETECTOR.chemistry_type", "mode": "reference", "output": "chemistry_type", "sweep": false, "sweepRootId": "chemistry_type", "node": "DETECT_CHEMISTRY", "matchedFork": 0, "value": "SC3Pv3", "waiting": false }, { "id": "molecule_info", "type": "h5", "valexp": "_BASIC_SC_RNA_COUNTER.molecule_info", "mode": "reference", "output": "output", "sweep": false, "sweepRootId": "molecule_info", "node": "REPORT_MOLECULES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/join-u55c7843d69/files/output.h5", "waiting": false }, { "id": "feature_reference", "type": "csv", "valexp": "SUMMARIZE_REPORTS.feature_reference", "mode": "reference", "output": "feature_reference", "sweep": false, "sweepRootId": "feature_reference", "node": "SUMMARIZE_REPORTS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SUMMARIZE_REPORTS/fork0/chnk0-u55c784404b/files/feature_reference.csv", "waiting": false }, { "id": "is_antibody_only", "type": "bool", "valexp": "CHEMISTRY_DETECTOR.is_antibody_only", "mode": "reference", "output": "is_antibody_only", "sweep": false, "sweepRootId": "is_antibody_only", "node": "DETECT_CHEMISTRY", "matchedFork": 0, "value": false, "waiting": false }, { "id": "metrics_summary_csv", "type": "csv", "valexp": "SUMMARIZE_REPORTS.metrics_summary_csv", "mode": "reference", "output": "metrics_summary_csv", "sweep": false, "sweepRootId": "metrics_summary_csv", "node": "SUMMARIZE_REPORTS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SUMMARIZE_REPORTS/fork0/chnk0-u55c784404b/files/metrics_summary_csv.csv", "waiting": false }, { "id": "barcode_summary", "type": "h5", "valexp": "_BASIC_SC_RNA_COUNTER.barcode_summary", "mode": "reference", "output": "barcode_summary", "sweep": false, "sweepRootId": "barcode_summary", "node": "COUNT_GENES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/join-u55c78435e4/files/barcode_summary.h5", "waiting": false }, { "id": "filtered_gene_bc_matrices_mex", "type": "path", "valexp": "_BASIC_SC_RNA_COUNTER.filtered_gene_bc_matrices_mex", "mode": "reference", "output": "filtered_matrices_mex", "sweep": false, "sweepRootId": "filtered_gene_bc_matrices_mex", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_matrices_mex", "waiting": false }, { "id": "read_fastqs", "type": "fastq", "valexp": "_BASIC_SC_RNA_COUNTER.read1s", "mode": "reference", "output": "read1s", "sweep": false, "sweepRootId": "read_fastqs", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk00-u55c78419ac/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk01-u55c78419ac/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk02-u55c78419ac/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk03-u55c78419ac/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk04-u55c78419ac/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk05-u55c78419ac/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk06-u55c78419ac/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk07-u55c78419ac/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk08-u55c78419ac/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk09-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk10-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk11-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk12-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk13-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk14-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk15-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk16-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk17-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk18-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk19-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk20-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk21-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk22-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk23-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk24-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk25-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk26-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk27-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk28-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk29-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk30-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk31-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk32-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk33-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk34-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk35-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk36-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk37-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk38-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk39-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk40-u55c78419af/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk41-u55c78419af/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk42-u55c78419af/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk43-u55c78419af/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk44-u55c78419af/files/read1s.fastq" ], "waiting": false }, { "id": "library_info", "type": "map", "valexp": "SETUP_CHUNKS.library_info", "mode": "reference", "output": "library_info", "sweep": false, "sweepRootId": "library_info", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": [ { "gem_group": 1, "library_id": "0", "library_type": "Gene Expression" } ], "waiting": false }, { "id": "possorted_genome_bam", "type": "bam", "valexp": "_BASIC_SC_RNA_COUNTER.possorted_genome_bam", "mode": "reference", "output": "output", "sweep": false, "sweepRootId": "possorted_genome_bam", "node": "SORT_BY_POS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/join-u55c78435e3/files/output.bam", "waiting": false }, { "id": "web_summary", "type": "html", "valexp": "SUMMARIZE_REPORTS.web_summary", "mode": "reference", "output": "web_summary", "sweep": false, "sweepRootId": "web_summary", "node": "SUMMARIZE_REPORTS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SUMMARIZE_REPORTS/fork0/chnk0-u55c784404b/files/web_summary.html", "waiting": false }, { "id": "metrics_summary_json", "type": "json", "valexp": "SUMMARIZE_REPORTS.metrics_summary_json", "mode": "reference", "output": "metrics_summary_json", "sweep": false, "sweepRootId": "metrics_summary_json", "node": "SUMMARIZE_REPORTS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SUMMARIZE_REPORTS/fork0/chnk0-u55c784404b/files/metrics_summary_json.json", "waiting": false }, { "id": "crispr_analysis", "type": "path", "valexp": "_CRISPR_ANALYZER.crispr_analysis", "mode": "reference", "output": "crispr_analysis", "sweep": false, "sweepRootId": "crispr_analysis", "node": "SUMMARIZE_CRISPR_ANALYSIS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "align", "type": "map", "valexp": "_BASIC_SC_RNA_COUNTER.align", "mode": "reference", "output": "align", "sweep": false, "sweepRootId": "align", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": { "aligner": "star", "high_conf_mapq": 255 }, "waiting": false }, { "id": "barcode_correction_csv", "type": "csv", "valexp": "_BASIC_SC_RNA_COUNTER.barcode_correction_csv", "mode": "reference", "output": "barcode_summary", "sweep": false, "sweepRootId": "barcode_correction_csv", "node": "MARK_DUPLICATES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/join-u55c784348a/files/barcode_summary.csv", "waiting": false }, { "id": "possorted_genome_bam_index", "type": "bam.bai", "valexp": "_BASIC_SC_RNA_COUNTER.possorted_genome_bam_index", "mode": "reference", "output": "index", "sweep": false, "sweepRootId": "possorted_genome_bam_index", "node": "SORT_BY_POS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/join-u55c78435e3/files/output.bam.bai", "waiting": false } ] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SUMMARIZE_REPORTS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER" } ], "stagecodeLang": "", "stagecodeCmd": "" }, { "name": "CELLRANGER_PREFLIGHT", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CELLRANGER_PREFLIGHT", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CELLRANGER_PREFLIGHT", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CELLRANGER_PREFLIGHT", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 2, "__vmem_gb": 5 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CELLRANGER_PREFLIGHT/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CELLRANGER_PREFLIGHT/fork0/split", "names": [ "args", "complete", "stage_defs" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CELLRANGER_PREFLIGHT/fork0/join", "names": [ "args", "chunk_defs", "complete", "outs" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CELLRANGER_PREFLIGHT/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "chemistry_name", "type": "string", "valexp": "self.chemistry_name", "mode": "value", "output": "", "sweep": false, "sweepRootId": "chemistry", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "auto", "waiting": false }, { "id": "reference_path", "type": "path", "valexp": "self.reference_path", "mode": "value", "output": "", "sweep": false, "sweepRootId": "reference_path", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/mm10_premrna_v1.0_pcg-only", "waiting": false }, { "id": "force_cells", "type": "int", "valexp": "self.force_cells", "mode": "value", "output": "", "sweep": false, "sweepRootId": "force_cells", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "r1_length", "type": "int", "valexp": "self.r1_length", "mode": "value", "output": "", "sweep": false, "sweepRootId": "r1_length", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "sample_def", "type": "map", "valexp": "self.sample_def", "mode": "reference", "output": "sample_def", "sweep": false, "sweepRootId": "sample_def", "node": "EXPAND_SAMPLE_DEF", "matchedFork": 0, "value": [ { "gem_group": null, "lanes": null, "sample_names": [ "G171C" ], "sample_indices": [ "any" ], "fastq_mode": "ILMN_BCL2FASTQ", "read_path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX" } ], "waiting": false }, { "id": "feature_reference", "type": "csv", "valexp": "self.feature_reference", "mode": "value", "output": "", "sweep": false, "sweepRootId": "feature_reference", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "check_executables", "type": "bool", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "check_executables", "node": "CELLRANGER_PREFLIGHT", "matchedFork": 0, "value": true, "waiting": false }, { "id": "recovered_cells", "type": "int", "valexp": "self.recovered_cells", "mode": "value", "output": "", "sweep": false, "sweepRootId": "recovered_cells", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": 5000, "waiting": false }, { "id": "allowed_chems", "type": "string", "valexp": "self.allowed_chems", "mode": "value", "output": "", "sweep": false, "sweepRootId": "allowed_chems", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": [ "auto", "custom", "threeprime", "fiveprime", "SC3P_auto", "SC5P_auto", "SC3Pv1", "SC3Pv2", "SC3Pv3", "SC5P-PE", "SC5P-R2", "SC5P-R1", "SC-FB" ], "waiting": false }, { "id": "r2_length", "type": "int", "valexp": "self.r2_length", "mode": "value", "output": "", "sweep": false, "sweepRootId": "r2_length", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "custom_chemistry_def", "type": "map", "valexp": "self.custom_chemistry_def", "mode": "value", "output": "", "sweep": false, "sweepRootId": "custom_chemistry_def", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CELLRANGER_PREFLIGHT" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/common/cellranger_preflight" }, { "name": "CELLRANGER_PREFLIGHT_LOCAL", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CELLRANGER_PREFLIGHT_LOCAL", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CELLRANGER_PREFLIGHT_LOCAL", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CELLRANGER_PREFLIGHT_LOCAL", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 2, "__vmem_gb": 5 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CELLRANGER_PREFLIGHT_LOCAL/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CELLRANGER_PREFLIGHT_LOCAL/fork0/split", "names": [ "args", "complete", "stage_defs" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CELLRANGER_PREFLIGHT_LOCAL/fork0/join", "names": [ "args", "chunk_defs", "complete", "outs" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CELLRANGER_PREFLIGHT_LOCAL/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "reference_path", "type": "path", "valexp": "self.reference_path", "mode": "value", "output": "", "sweep": false, "sweepRootId": "reference_path", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/mm10_premrna_v1.0_pcg-only", "waiting": false }, { "id": "feature_reference", "type": "csv", "valexp": "self.feature_reference", "mode": "value", "output": "", "sweep": false, "sweepRootId": "feature_reference", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "check_executables", "type": "bool", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "check_executables", "node": "CELLRANGER_PREFLIGHT_LOCAL", "matchedFork": 0, "value": false, "waiting": false }, { "id": "recovered_cells", "type": "int", "valexp": "self.recovered_cells", "mode": "value", "output": "", "sweep": false, "sweepRootId": "recovered_cells", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": 5000, "waiting": false }, { "id": "force_cells", "type": "int", "valexp": "self.force_cells", "mode": "value", "output": "", "sweep": false, "sweepRootId": "force_cells", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "allowed_chems", "type": "string", "valexp": "self.allowed_chems", "mode": "value", "output": "", "sweep": false, "sweepRootId": "allowed_chems", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": [ "auto", "custom", "threeprime", "fiveprime", "SC3P_auto", "SC5P_auto", "SC3Pv1", "SC3Pv2", "SC3Pv3", "SC5P-PE", "SC5P-R2", "SC5P-R1", "SC-FB" ], "waiting": false }, { "id": "sample_def", "type": "map", "valexp": "self.sample_def", "mode": "reference", "output": "sample_def", "sweep": false, "sweepRootId": "sample_def", "node": "EXPAND_SAMPLE_DEF", "matchedFork": 0, "value": [ { "gem_group": null, "lanes": null, "sample_names": [ "G171C" ], "sample_indices": [ "any" ], "fastq_mode": "ILMN_BCL2FASTQ", "read_path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX" } ], "waiting": false }, { "id": "custom_chemistry_def", "type": "map", "valexp": "self.custom_chemistry_def", "mode": "value", "output": "", "sweep": false, "sweepRootId": "custom_chemistry_def", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "r1_length", "type": "int", "valexp": "self.r1_length", "mode": "value", "output": "", "sweep": false, "sweepRootId": "r1_length", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "r2_length", "type": "int", "valexp": "self.r2_length", "mode": "value", "output": "", "sweep": false, "sweepRootId": "r2_length", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "chemistry_name", "type": "string", "valexp": "self.chemistry_name", "mode": "value", "output": "", "sweep": false, "sweepRootId": "chemistry", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "auto", "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CELLRANGER_PREFLIGHT_LOCAL" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/common/cellranger_preflight" }, { "name": "CHECK_BARCODES_COMPATIBILITY", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHECK_BARCODES_COMPATIBILITY", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CHECK_BARCODES_COMPATIBILITY", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CHECK_BARCODES_COMPATIBILITY", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 2, "__vmem_gb": 5 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CHECK_BARCODES_COMPATIBILITY/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CHECK_BARCODES_COMPATIBILITY/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CHECK_BARCODES_COMPATIBILITY/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [], "bindings": { "Argument": [ { "id": "chunks", "type": "map", "valexp": "SETUP_CHUNKS.chunks", "mode": "reference", "output": "chunks", "sweep": false, "sweepRootId": "chunks", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": [ { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX/G171C_S2_L007_I1_001.fastq.gz", "I2": null, "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX/G171C_S2_L007_R1_001.fastq.gz", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX/G171C_S2_L007_R2_001.fastq.gz" }, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "reads_interleaved": false } ], "waiting": false }, { "id": "barcode_whitelist", "type": "string", "valexp": "SETUP_CHUNKS.barcode_whitelist", "mode": "reference", "output": "barcode_whitelist", "sweep": false, "sweepRootId": "barcode_whitelist", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": "3M-february-2018", "waiting": false }, { "id": "num_reads_to_check_barcode", "type": "int", "valexp": "self.num_reads_to_check_barcode", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_reads_to_check_barcode", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "barcode_compatibility_cutoff", "type": "float", "valexp": "self.barcode_compatibility_cutoff", "mode": "value", "output": "", "sweep": false, "sweepRootId": "barcode_compatibility_cutoff", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHECK_BARCODES_COMPATIBILITY" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/counter/check_barcodes_compatibility" }, { "name": "CHEMISTRY_DETECTOR", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR", "type": "pipeline", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CHEMISTRY_DETECTOR", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CHEMISTRY_DETECTOR", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": null, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CHEMISTRY_DETECTOR/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CHEMISTRY_DETECTOR/fork0/split", "names": [] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CHEMISTRY_DETECTOR/fork0/join", "names": [] }, "chunks": [], "bindings": { "Argument": [ { "id": "chemistry_name_spec", "type": "string", "valexp": "self.chemistry_name", "mode": "value", "output": "", "sweep": false, "sweepRootId": "chemistry", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "auto", "waiting": false }, { "id": "allowed_chems", "type": "string", "valexp": "self.allowed_chems", "mode": "value", "output": "", "sweep": false, "sweepRootId": "allowed_chems", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": [ "auto", "custom", "threeprime", "fiveprime", "SC3P_auto", "SC5P_auto", "SC3Pv1", "SC3Pv2", "SC3Pv3", "SC5P-PE", "SC5P-R2", "SC5P-R1", "SC-FB" ], "waiting": false }, { "id": "r1_length", "type": "int", "valexp": "self.r1_length", "mode": "value", "output": "", "sweep": false, "sweepRootId": "r1_length", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "r2_length", "type": "int", "valexp": "self.r2_length", "mode": "value", "output": "", "sweep": false, "sweepRootId": "r2_length", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "sample_id", "type": "string", "valexp": "self.sample_id", "mode": "value", "output": "", "sweep": false, "sweepRootId": "sample_id", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "10X_G171C_pcgonly_UseThis", "waiting": false }, { "id": "sample_def", "type": "map", "valexp": "self.sample_def", "mode": "reference", "output": "sample_def", "sweep": false, "sweepRootId": "sample_def", "node": "EXPAND_SAMPLE_DEF", "matchedFork": 0, "value": [ { "gem_group": null, "lanes": null, "sample_names": [ "G171C" ], "sample_indices": [ "any" ], "fastq_mode": "ILMN_BCL2FASTQ", "read_path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX" } ], "waiting": false }, { "id": "reference_path", "type": "path", "valexp": "self.reference_path", "mode": "value", "output": "", "sweep": false, "sweepRootId": "reference_path", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/mm10_premrna_v1.0_pcg-only", "waiting": false }, { "id": "vdj_reference_path", "type": "path", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "vdj_reference_path", "node": "CHEMISTRY_DETECTOR", "matchedFork": 0, "value": null, "waiting": false } ], "Return": [ { "id": "summary", "type": "json", "valexp": "DETECT_CHEMISTRY.summary", "mode": "reference", "output": "summary", "sweep": false, "sweepRootId": "summary", "node": "DETECT_CHEMISTRY", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CHEMISTRY_DETECTOR/DETECT_CHEMISTRY/fork0/chnk0-u55c7840ced/files/summary.json", "waiting": false }, { "id": "chemistry_type", "type": "string", "valexp": "DETECT_CHEMISTRY.chemistry_type", "mode": "reference", "output": "chemistry_type", "sweep": false, "sweepRootId": "chemistry_type", "node": "DETECT_CHEMISTRY", "matchedFork": 0, "value": "SC3Pv3", "waiting": false }, { "id": "report", "type": "txt", "valexp": "DETECT_CHEMISTRY.report", "mode": "reference", "output": "report", "sweep": false, "sweepRootId": "report", "node": "DETECT_CHEMISTRY", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CHEMISTRY_DETECTOR/DETECT_CHEMISTRY/fork0/chnk0-u55c7840ced/files/report.txt", "waiting": false }, { "id": "is_antibody_only", "type": "bool", "valexp": "DETECT_CHEMISTRY.is_antibody_only", "mode": "reference", "output": "is_antibody_only", "sweep": false, "sweepRootId": "is_antibody_only", "node": "DETECT_CHEMISTRY", "matchedFork": 0, "value": false, "waiting": false } ] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR.DETECT_CHEMISTRY", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR" } ], "stagecodeLang": "", "stagecodeCmd": "" }, { "name": "DETECT_CHEMISTRY", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR.DETECT_CHEMISTRY", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CHEMISTRY_DETECTOR/DETECT_CHEMISTRY", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CHEMISTRY_DETECTOR/DETECT_CHEMISTRY", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 8, "__vmem_gb": 11 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CHEMISTRY_DETECTOR/DETECT_CHEMISTRY/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CHEMISTRY_DETECTOR/DETECT_CHEMISTRY/fork0/split", "names": [ "args", "complete", "stage_defs" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CHEMISTRY_DETECTOR/DETECT_CHEMISTRY/fork0/join", "names": [ "args", "chunk_defs", "complete", "outs" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/CHEMISTRY_DETECTOR/DETECT_CHEMISTRY/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "progress", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "chemistry_name_spec", "type": "string", "valexp": "self.chemistry_name_spec", "mode": "value", "output": "", "sweep": false, "sweepRootId": "chemistry", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "auto", "waiting": false }, { "id": "allowed_chems", "type": "string", "valexp": "self.allowed_chems", "mode": "value", "output": "", "sweep": false, "sweepRootId": "allowed_chems", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": [ "auto", "custom", "threeprime", "fiveprime", "SC3P_auto", "SC5P_auto", "SC3Pv1", "SC3Pv2", "SC3Pv3", "SC5P-PE", "SC5P-R2", "SC5P-R1", "SC-FB" ], "waiting": false }, { "id": "r1_length", "type": "int", "valexp": "self.r1_length", "mode": "value", "output": "", "sweep": false, "sweepRootId": "r1_length", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "r2_length", "type": "int", "valexp": "self.r2_length", "mode": "value", "output": "", "sweep": false, "sweepRootId": "r2_length", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "sample_id", "type": "string", "valexp": "self.sample_id", "mode": "value", "output": "", "sweep": false, "sweepRootId": "sample_id", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "10X_G171C_pcgonly_UseThis", "waiting": false }, { "id": "reference_path", "type": "path", "valexp": "self.reference_path", "mode": "value", "output": "", "sweep": false, "sweepRootId": "reference_path", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/mm10_premrna_v1.0_pcg-only", "waiting": false }, { "id": "vdj_reference_path", "type": "path", "valexp": "self.vdj_reference_path", "mode": "value", "output": "", "sweep": false, "sweepRootId": "vdj_reference_path", "node": "CHEMISTRY_DETECTOR", "matchedFork": 0, "value": null, "waiting": false }, { "id": "sample_def", "type": "map", "valexp": "self.sample_def", "mode": "reference", "output": "sample_def", "sweep": false, "sweepRootId": "sample_def", "node": "EXPAND_SAMPLE_DEF", "matchedFork": 0, "value": [ { "gem_group": null, "lanes": null, "sample_names": [ "G171C" ], "sample_indices": [ "any" ], "fastq_mode": "ILMN_BCL2FASTQ", "read_path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX" } ], "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR.DETECT_CHEMISTRY" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/chemistry_detector/detect_chemistry" }, { "name": "DISABLE_FEATURE_STAGES", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.DISABLE_FEATURE_STAGES", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/DISABLE_FEATURE_STAGES", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/DISABLE_FEATURE_STAGES", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/DISABLE_FEATURE_STAGES/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/DISABLE_FEATURE_STAGES/fork0/split", "names": [ "args", "complete", "stage_defs" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/DISABLE_FEATURE_STAGES/fork0/join", "names": [ "args", "chunk_defs", "complete", "outs" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/DISABLE_FEATURE_STAGES/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "sample_def", "type": "map", "valexp": "self.sample_def", "mode": "reference", "output": "sample_def", "sweep": false, "sweepRootId": "sample_def", "node": "EXPAND_SAMPLE_DEF", "matchedFork": 0, "value": [ { "gem_group": null, "lanes": null, "sample_names": [ "G171C" ], "sample_indices": [ "any" ], "fastq_mode": "ILMN_BCL2FASTQ", "read_path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX" } ], "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.DISABLE_FEATURE_STAGES" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/common/disable_feature_stages" }, { "name": "SC_RNA_ANALYZER", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER", "type": "pipeline", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": null, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/fork0/split", "names": [] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/fork0/join", "names": [] }, "chunks": [], "bindings": { "Argument": [ { "id": "umap_n_neighbors", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "umap_n_neighbors", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "umap_max_dims", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "umap_max_dims", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "num_pca_bcs", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_pca_bcs", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "num_principal_comps", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_principal_comps", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "graphclust_neighbors", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "graphclust_neighbors", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "num_analysis_bcs", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_analysis_bcs", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "use_bcs", "type": "csv", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "use_bcs", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "umap_min_dist", "type": "float", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "umap_min_dist", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "cbc_knn", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "cbc_knn", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "neighbor_a", "type": "float", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "neighbor_a", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "neighbor_b", "type": "float", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "neighbor_b", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "tsne_stop_lying_iter", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_stop_lying_iter", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "filtered_matrices_h5", "type": "h5", "valexp": "_BASIC_SC_RNA_COUNTER.filtered_gene_bc_matrices_h5", "mode": "reference", "output": "filtered_matrices_h5", "sweep": false, "sweepRootId": "filtered_matrices_h5", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_matrices_h5.h5", "waiting": false }, { "id": "tsne_perplexity", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_perplexity", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "tsne_theta", "type": "float", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_theta", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "raw_matrices_h5", "type": "h5", "valexp": "_BASIC_SC_RNA_COUNTER.raw_gene_bc_matrices_h5", "mode": "reference", "output": "matrices_h5", "sweep": false, "sweepRootId": "raw_matrices_h5", "node": "COUNT_GENES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/join-u55c78435e4/files/matrices_h5.h5", "waiting": false }, { "id": "chemistry_batch_correction", "type": "bool", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "chemistry_batch_correction", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": false, "waiting": false }, { "id": "use_genes", "type": "csv", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "use_genes", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "tsne_mom_switch_iter", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_mom_switch_iter", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "num_pca_genes", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_pca_genes", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "cbc_alpha", "type": "float", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "cbc_alpha", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "random_seed", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "random_seed", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "tsne_input_pcs", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_input_pcs", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "exclude_genes", "type": "csv", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "exclude_genes", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "tsne_max_iter", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_max_iter", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "no_secondary_analysis", "type": "bool", "valexp": "self.no_secondary_analysis", "mode": "value", "output": "", "sweep": false, "sweepRootId": "no_secondary_analysis", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": false, "waiting": false }, { "id": "aggr_library_info", "type": "map", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "aggr_library_info", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "cbc_realign_panorama", "type": "bool", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "cbc_realign_panorama", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "umap_input_pcs", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "umap_input_pcs", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "umap_metric", "type": "string", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "umap_metric", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "force_cells", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "force_cells", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "cbc_sigma", "type": "float", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "cbc_sigma", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "max_clusters", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "max_clusters", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "tsne_max_dims", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_max_dims", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false } ], "Return": [ { "id": "analysis_csv", "type": "path", "valexp": "SUMMARIZE_ANALYSIS.analysis_csv", "mode": "reference", "output": "analysis_csv", "sweep": false, "sweepRootId": "analysis_csv", "node": "SUMMARIZE_ANALYSIS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/SUMMARIZE_ANALYSIS/fork0/join-u55c7843f2f/files/analysis_csv", "waiting": false }, { "id": "cloupe_matrix_h5", "type": "h5", "valexp": "PREPROCESS_MATRIX.cloupe_matrix_h5", "mode": "reference", "output": "cloupe_matrix_h5", "sweep": false, "sweepRootId": "cloupe_matrix_h5", "node": "PREPROCESS_MATRIX", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/PREPROCESS_MATRIX/fork0/join-u55c7843d8d/files/cloupe_matrix_h5.h5", "waiting": false }, { "id": "summary", "type": "json", "valexp": "SUMMARIZE_ANALYSIS.summary", "mode": "reference", "output": "summary", "sweep": false, "sweepRootId": "summary", "node": "SUMMARIZE_ANALYSIS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/SUMMARIZE_ANALYSIS/fork0/join-u55c7843f2f/files/summary.json", "waiting": false }, { "id": "analysis", "type": "path", "valexp": "SUMMARIZE_ANALYSIS.analysis", "mode": "reference", "output": "analysis", "sweep": false, "sweepRootId": "analysis", "node": "SUMMARIZE_ANALYSIS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/SUMMARIZE_ANALYSIS/fork0/join-u55c7843f2f/files/analysis", "waiting": false } ] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER" } ], "stagecodeLang": "", "stagecodeCmd": "" }, { "name": "ANALYZER_PREFLIGHT", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.ANALYZER_PREFLIGHT", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/ANALYZER_PREFLIGHT", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/ANALYZER_PREFLIGHT", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/ANALYZER_PREFLIGHT/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/ANALYZER_PREFLIGHT/fork0/split", "names": [ "args", "complete", "stage_defs" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/ANALYZER_PREFLIGHT/fork0/join", "names": [ "args", "chunk_defs", "complete", "outs" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/ANALYZER_PREFLIGHT/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "tsne_stop_lying_iter", "type": "int", "valexp": "self.tsne_stop_lying_iter", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_stop_lying_iter", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "umap_n_neighbors", "type": "int", "valexp": "self.umap_n_neighbors", "mode": "value", "output": "", "sweep": false, "sweepRootId": "umap_n_neighbors", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "umap_min_dist", "type": "float", "valexp": "self.umap_min_dist", "mode": "value", "output": "", "sweep": false, "sweepRootId": "umap_min_dist", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "raw_matrices_h5", "type": "h5", "valexp": "self.raw_matrices_h5", "mode": "reference", "output": "matrices_h5", "sweep": false, "sweepRootId": "raw_matrices_h5", "node": "COUNT_GENES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/join-u55c78435e4/files/matrices_h5.h5", "waiting": false }, { "id": "use_bcs", "type": "csv", "valexp": "self.use_bcs", "mode": "value", "output": "", "sweep": false, "sweepRootId": "use_bcs", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "random_seed", "type": "int", "valexp": "self.random_seed", "mode": "value", "output": "", "sweep": false, "sweepRootId": "random_seed", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "num_pca_genes", "type": "int", "valexp": "self.num_pca_genes", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_pca_genes", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "tsne_theta", "type": "float", "valexp": "self.tsne_theta", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_theta", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "umap_input_pcs", "type": "int", "valexp": "self.umap_input_pcs", "mode": "value", "output": "", "sweep": false, "sweepRootId": "umap_input_pcs", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "num_pca_bcs", "type": "int", "valexp": "self.num_pca_bcs", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_pca_bcs", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "cbc_alpha", "type": "float", "valexp": "self.cbc_alpha", "mode": "value", "output": "", "sweep": false, "sweepRootId": "cbc_alpha", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "cbc_sigma", "type": "float", "valexp": "self.cbc_sigma", "mode": "value", "output": "", "sweep": false, "sweepRootId": "cbc_sigma", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "tsne_perplexity", "type": "int", "valexp": "self.tsne_perplexity", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_perplexity", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "skip", "type": "bool", "valexp": "self.no_secondary_analysis", "mode": "value", "output": "", "sweep": false, "sweepRootId": "no_secondary_analysis", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": false, "waiting": false }, { "id": "umap_max_dims", "type": "int", "valexp": "self.umap_max_dims", "mode": "value", "output": "", "sweep": false, "sweepRootId": "umap_max_dims", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "use_genes", "type": "csv", "valexp": "self.use_genes", "mode": "value", "output": "", "sweep": false, "sweepRootId": "use_genes", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "num_principal_comps", "type": "int", "valexp": "self.num_principal_comps", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_principal_comps", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "cbc_realign_panorama", "type": "bool", "valexp": "self.cbc_realign_panorama", "mode": "value", "output": "", "sweep": false, "sweepRootId": "cbc_realign_panorama", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "neighbor_a", "type": "float", "valexp": "self.neighbor_a", "mode": "value", "output": "", "sweep": false, "sweepRootId": "neighbor_a", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "filtered_matrices_h5", "type": "h5", "valexp": "self.filtered_matrices_h5", "mode": "reference", "output": "filtered_matrices_h5", "sweep": false, "sweepRootId": "filtered_matrices_h5", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_matrices_h5.h5", "waiting": false }, { "id": "num_analysis_bcs", "type": "int", "valexp": "self.num_analysis_bcs", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_analysis_bcs", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "graphclust_neighbors", "type": "int", "valexp": "self.graphclust_neighbors", "mode": "value", "output": "", "sweep": false, "sweepRootId": "graphclust_neighbors", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "umap_metric", "type": "string", "valexp": "self.umap_metric", "mode": "value", "output": "", "sweep": false, "sweepRootId": "umap_metric", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "tsne_max_dims", "type": "int", "valexp": "self.tsne_max_dims", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_max_dims", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "cbc_knn", "type": "int", "valexp": "self.cbc_knn", "mode": "value", "output": "", "sweep": false, "sweepRootId": "cbc_knn", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "max_clusters", "type": "int", "valexp": "self.max_clusters", "mode": "value", "output": "", "sweep": false, "sweepRootId": "max_clusters", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "neighbor_b", "type": "float", "valexp": "self.neighbor_b", "mode": "value", "output": "", "sweep": false, "sweepRootId": "neighbor_b", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "tsne_max_iter", "type": "int", "valexp": "self.tsne_max_iter", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_max_iter", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "exclude_genes", "type": "csv", "valexp": "self.exclude_genes", "mode": "value", "output": "", "sweep": false, "sweepRootId": "exclude_genes", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "force_cells", "type": "int", "valexp": "self.force_cells", "mode": "value", "output": "", "sweep": false, "sweepRootId": "force_cells", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "tsne_input_pcs", "type": "int", "valexp": "self.tsne_input_pcs", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_input_pcs", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "tsne_mom_switch_iter", "type": "int", "valexp": "self.tsne_mom_switch_iter", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_mom_switch_iter", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.ANALYZER_PREFLIGHT" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/analyzer/analyzer_preflight" }, { "name": "CHOOSE_DIMENSION_REDUCTION", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION/fork0/split", "names": [ "args", "complete", "stage_defs" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION/fork0/join", "names": [ "args", "chunk_defs", "complete", "outs" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "chemistry_batch_correction", "type": "bool", "valexp": "self.chemistry_batch_correction", "mode": "value", "output": "", "sweep": false, "sweepRootId": "chemistry_batch_correction", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": false, "waiting": false } ], "Return": [] } } ], "edges": [], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/analyzer/choose_dimension_reduction" }, { "name": "CHOOSE_DIMENSION_REDUCTION_OUTPUT", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION_OUTPUT", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION_OUTPUT", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION_OUTPUT/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION_OUTPUT/fork0/split", "names": [ "args", "complete", "stage_defs" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION_OUTPUT/fork0/join", "names": [ "args", "chunk_defs", "complete", "outs" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION_OUTPUT/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "skip", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.skip", "mode": "reference", "output": "skip", "sweep": false, "sweepRootId": "skip", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false }, { "id": "pca_h5_list", "type": "h5", "valexp": "", "mode": "array", "output": "", "sweep": false, "sweepRootId": "pca_h5_list", "node": "CHOOSE_DIMENSION_REDUCTION_OUTPUT", "matchedFork": 0, "value": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_PCA/fork0/join-u55c7843e79/files/pca_h5.h5", null ], "waiting": false }, { "id": "pca_csv_list", "type": "path", "valexp": "", "mode": "array", "output": "", "sweep": false, "sweepRootId": "pca_csv_list", "node": "CHOOSE_DIMENSION_REDUCTION_OUTPUT", "matchedFork": 0, "value": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_PCA/fork0/join-u55c7843e79/files/pca_csv", null ], "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.ANALYZER_PREFLIGHT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CORRECT_CHEMISTRY_BATCH", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/analyzer/choose_dimension_reduction_output" }, { "name": "COMBINE_CLUSTERING", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.COMBINE_CLUSTERING", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/COMBINE_CLUSTERING", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/COMBINE_CLUSTERING", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/COMBINE_CLUSTERING/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/COMBINE_CLUSTERING/fork0/split", "names": [ "args", "complete", "stage_defs" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/COMBINE_CLUSTERING/fork0/join", "names": [ "args", "chunk_defs", "complete", "outs" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/COMBINE_CLUSTERING/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "skip", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.skip", "mode": "reference", "output": "skip", "sweep": false, "sweepRootId": "skip", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false }, { "id": "kmeans_h5", "type": "h5", "valexp": "RUN_KMEANS.kmeans_h5", "mode": "reference", "output": "kmeans_h5", "sweep": false, "sweepRootId": "kmeans_h5", "node": "RUN_KMEANS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_KMEANS/fork0/join-u55c7843e94/files/kmeans_h5.h5", "waiting": false }, { "id": "kmeans_csv", "type": "path", "valexp": "RUN_KMEANS.kmeans_csv", "mode": "reference", "output": "kmeans_csv", "sweep": false, "sweepRootId": "kmeans_csv", "node": "RUN_KMEANS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_KMEANS/fork0/join-u55c7843e94/files/kmeans_csv", "waiting": false }, { "id": "graphclust_h5", "type": "h5", "valexp": "MERGE_CLUSTERS.clusters_h5", "mode": "reference", "output": "clusters_h5", "sweep": false, "sweepRootId": "graphclust_h5", "node": "MERGE_CLUSTERS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/MERGE_CLUSTERS/fork0/join-u55c7843eb9/files/clusters_h5.h5", "waiting": false }, { "id": "graphclust_csv", "type": "path", "valexp": "MERGE_CLUSTERS.clusters_csv", "mode": "reference", "output": "clusters_csv", "sweep": false, "sweepRootId": "graphclust_csv", "node": "MERGE_CLUSTERS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/MERGE_CLUSTERS/fork0/join-u55c7843eb9/files/clusters_csv", "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.ANALYZER_PREFLIGHT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.COMBINE_CLUSTERING" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.COMBINE_CLUSTERING" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.COMBINE_CLUSTERING" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/analyzer/combine_clustering" }, { "name": "CORRECT_CHEMISTRY_BATCH", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CORRECT_CHEMISTRY_BATCH", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CORRECT_CHEMISTRY_BATCH", "state": "disabled", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CORRECT_CHEMISTRY_BATCH", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": null, "state": "disabled", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CORRECT_CHEMISTRY_BATCH/fork0", "names": [ "disabled", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CORRECT_CHEMISTRY_BATCH/fork0/split", "names": [] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CORRECT_CHEMISTRY_BATCH/fork0/join", "names": [] }, "chunks": [], "bindings": { "Argument": [ { "id": "dimred_matrix", "type": "pickle", "valexp": "RUN_FBPCA.dimred_matrix", "mode": "reference", "output": "dimred_matrix", "sweep": false, "sweepRootId": "dimred_matrix", "node": "RUN_FBPCA", "matchedFork": 0, "value": null, "waiting": false }, { "id": "matrix_barcode_feature_info", "type": "pickle", "valexp": "RUN_FBPCA.matrix_barcode_feature_info", "mode": "reference", "output": "matrix_barcode_feature_info", "sweep": false, "sweepRootId": "matrix_barcode_feature_info", "node": "RUN_FBPCA", "matchedFork": 0, "value": null, "waiting": false }, { "id": "library_info", "type": "map", "valexp": "self.aggr_library_info", "mode": "value", "output": "", "sweep": false, "sweepRootId": "aggr_library_info", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "cbc_knn", "type": "int", "valexp": "self.cbc_knn", "mode": "value", "output": "", "sweep": false, "sweepRootId": "cbc_knn", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "cbc_alpha", "type": "float", "valexp": "self.cbc_alpha", "mode": "value", "output": "", "sweep": false, "sweepRootId": "cbc_alpha", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "cbc_sigma", "type": "float", "valexp": "self.cbc_sigma", "mode": "value", "output": "", "sweep": false, "sweepRootId": "cbc_sigma", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "cbc_realign_panorama", "type": "bool", "valexp": "self.cbc_realign_panorama", "mode": "value", "output": "", "sweep": false, "sweepRootId": "cbc_realign_panorama", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "skip", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.skip", "mode": "reference", "output": "skip", "sweep": false, "sweepRootId": "skip", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_FBPCA", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CORRECT_CHEMISTRY_BATCH" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.ANALYZER_PREFLIGHT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CORRECT_CHEMISTRY_BATCH" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CORRECT_CHEMISTRY_BATCH" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/analyzer/correct_chemistry_batch" }, { "name": "MERGE_CLUSTERS", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/MERGE_CLUSTERS", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/MERGE_CLUSTERS", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 6, "__vmem_gb": 9 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/MERGE_CLUSTERS/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/MERGE_CLUSTERS/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/MERGE_CLUSTERS/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/MERGE_CLUSTERS/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "matrix_h5", "type": "h5", "valexp": "PREPROCESS_MATRIX.preprocessed_matrix_h5", "mode": "reference", "output": "preprocessed_matrix_h5", "sweep": false, "sweepRootId": "matrix_h5", "node": "PREPROCESS_MATRIX", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/PREPROCESS_MATRIX/fork0/join-u55c7843d8d/files/preprocessed_matrix_h5.h5", "waiting": false }, { "id": "pca_h5", "type": "h5", "valexp": "CHOOSE_DIMENSION_REDUCTION_OUTPUT.pca_h5", "mode": "reference", "output": "pca_h5", "sweep": false, "sweepRootId": "pca_h5", "node": "CHOOSE_DIMENSION_REDUCTION_OUTPUT", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION_OUTPUT/fork0/chnk0-u55c7843e8d/files/pca_h5.h5", "waiting": false }, { "id": "clusters_h5", "type": "h5", "valexp": "RUN_GRAPH_CLUSTERING.clusters_h5", "mode": "reference", "output": "clusters_h5", "sweep": false, "sweepRootId": "clusters_h5", "node": "RUN_GRAPH_CLUSTERING", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_GRAPH_CLUSTERING/fork0/join-u55c7843e92/files/clusters_h5.h5", "waiting": false }, { "id": "skip", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.skip", "mode": "reference", "output": "skip", "sweep": false, "sweepRootId": "skip", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.ANALYZER_PREFLIGHT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/analyzer/merge_clusters" }, { "name": "PREPROCESS_MATRIX", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/PREPROCESS_MATRIX", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/PREPROCESS_MATRIX", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 3, "__vmem_gb": 6 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/PREPROCESS_MATRIX/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/PREPROCESS_MATRIX/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/PREPROCESS_MATRIX/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [], "bindings": { "Argument": [ { "id": "exclude_genes", "type": "csv", "valexp": "self.exclude_genes", "mode": "value", "output": "", "sweep": false, "sweepRootId": "exclude_genes", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "use_bcs", "type": "csv", "valexp": "self.use_bcs", "mode": "value", "output": "", "sweep": false, "sweepRootId": "use_bcs", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "force_cells", "type": "int", "valexp": "self.force_cells", "mode": "value", "output": "", "sweep": false, "sweepRootId": "force_cells", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "matrix_h5", "type": "h5", "valexp": "self.filtered_matrices_h5", "mode": "reference", "output": "filtered_matrices_h5", "sweep": false, "sweepRootId": "filtered_matrices_h5", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_matrices_h5.h5", "waiting": false }, { "id": "use_genes", "type": "csv", "valexp": "self.use_genes", "mode": "value", "output": "", "sweep": false, "sweepRootId": "use_genes", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "is_antibody_only", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.is_antibody_only", "mode": "reference", "output": "is_antibody_only", "sweep": false, "sweepRootId": "is_antibody_only", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false }, { "id": "skip", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.skip", "mode": "reference", "output": "skip", "sweep": false, "sweepRootId": "skip", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false }, { "id": "random_seed", "type": "int", "valexp": "self.random_seed", "mode": "value", "output": "", "sweep": false, "sweepRootId": "random_seed", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "num_bcs", "type": "int", "valexp": "self.num_analysis_bcs", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_analysis_bcs", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.ANALYZER_PREFLIGHT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/analyzer/preprocess_matrix" }, { "name": "RUN_DIFFERENTIAL_EXPRESSION", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_DIFFERENTIAL_EXPRESSION", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_DIFFERENTIAL_EXPRESSION", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_DIFFERENTIAL_EXPRESSION/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_DIFFERENTIAL_EXPRESSION/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_DIFFERENTIAL_EXPRESSION/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 3, "__threads": 4, "__vmem_gb": 6, "clustering_key": "graphclust" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_DIFFERENTIAL_EXPRESSION/fork0/chnk00", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 1, "chunkDef": { "__mem_gb": 3, "__threads": 4, "__vmem_gb": 6, "clustering_key": "kmeans_10_clusters" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_DIFFERENTIAL_EXPRESSION/fork0/chnk01", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 2, "chunkDef": { "__mem_gb": 3, "__threads": 4, "__vmem_gb": 6, "clustering_key": "kmeans_2_clusters" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_DIFFERENTIAL_EXPRESSION/fork0/chnk02", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 3, "chunkDef": { "__mem_gb": 3, "__threads": 4, "__vmem_gb": 6, "clustering_key": "kmeans_3_clusters" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_DIFFERENTIAL_EXPRESSION/fork0/chnk03", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 4, "chunkDef": { "__mem_gb": 3, "__threads": 4, "__vmem_gb": 6, "clustering_key": "kmeans_4_clusters" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_DIFFERENTIAL_EXPRESSION/fork0/chnk04", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 5, "chunkDef": { "__mem_gb": 3, "__threads": 4, "__vmem_gb": 6, "clustering_key": "kmeans_5_clusters" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_DIFFERENTIAL_EXPRESSION/fork0/chnk05", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 6, "chunkDef": { "__mem_gb": 3, "__threads": 4, "__vmem_gb": 6, "clustering_key": "kmeans_6_clusters" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_DIFFERENTIAL_EXPRESSION/fork0/chnk06", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 7, "chunkDef": { "__mem_gb": 3, "__threads": 4, "__vmem_gb": 6, "clustering_key": "kmeans_7_clusters" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_DIFFERENTIAL_EXPRESSION/fork0/chnk07", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 8, "chunkDef": { "__mem_gb": 3, "__threads": 4, "__vmem_gb": 6, "clustering_key": "kmeans_8_clusters" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_DIFFERENTIAL_EXPRESSION/fork0/chnk08", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 9, "chunkDef": { "__mem_gb": 3, "__threads": 4, "__vmem_gb": 6, "clustering_key": "kmeans_9_clusters" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_DIFFERENTIAL_EXPRESSION/fork0/chnk09", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "max_clusters", "type": "int", "valexp": "self.max_clusters", "mode": "value", "output": "", "sweep": false, "sweepRootId": "max_clusters", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "is_antibody_only", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.is_antibody_only", "mode": "reference", "output": "is_antibody_only", "sweep": false, "sweepRootId": "is_antibody_only", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false }, { "id": "skip", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.skip", "mode": "reference", "output": "skip", "sweep": false, "sweepRootId": "skip", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false }, { "id": "matrix_h5", "type": "h5", "valexp": "PREPROCESS_MATRIX.preprocessed_matrix_h5", "mode": "reference", "output": "preprocessed_matrix_h5", "sweep": false, "sweepRootId": "matrix_h5", "node": "PREPROCESS_MATRIX", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/PREPROCESS_MATRIX/fork0/join-u55c7843d8d/files/preprocessed_matrix_h5.h5", "waiting": false }, { "id": "clustering_h5", "type": "h5", "valexp": "COMBINE_CLUSTERING.clustering_h5", "mode": "reference", "output": "clustering_h5", "sweep": false, "sweepRootId": "clustering_h5", "node": "COMBINE_CLUSTERING", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/COMBINE_CLUSTERING/fork0/chnk0-u55c7843ece/files/clustering_h5.h5", "waiting": false }, { "id": "random_seed", "type": "int", "valexp": "self.random_seed", "mode": "value", "output": "", "sweep": false, "sweepRootId": "random_seed", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.ANALYZER_PREFLIGHT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.COMBINE_CLUSTERING", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/analyzer/run_differential_expression" }, { "name": "RUN_FBPCA", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_FBPCA", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_FBPCA", "state": "disabled", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_FBPCA", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": null, "state": "disabled", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_FBPCA/fork0", "names": [ "disabled", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_FBPCA/fork0/split", "names": [] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_FBPCA/fork0/join", "names": [] }, "chunks": [], "bindings": { "Argument": [ { "id": "matrix_h5", "type": "h5", "valexp": "PREPROCESS_MATRIX.preprocessed_matrix_h5", "mode": "reference", "output": "preprocessed_matrix_h5", "sweep": false, "sweepRootId": "matrix_h5", "node": "PREPROCESS_MATRIX", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/PREPROCESS_MATRIX/fork0/join-u55c7843d8d/files/preprocessed_matrix_h5.h5", "waiting": false }, { "id": "library_info", "type": "map", "valexp": "self.aggr_library_info", "mode": "value", "output": "", "sweep": false, "sweepRootId": "aggr_library_info", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "num_pcs", "type": "int", "valexp": "self.num_principal_comps", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_principal_comps", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "skip", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.skip", "mode": "reference", "output": "skip", "sweep": false, "sweepRootId": "skip", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false }, { "id": "is_antibody_only", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.is_antibody_only", "mode": "reference", "output": "is_antibody_only", "sweep": false, "sweepRootId": "is_antibody_only", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_FBPCA" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.ANALYZER_PREFLIGHT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_FBPCA" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_FBPCA" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/analyzer/run_fbpca" }, { "name": "RUN_GRAPH_CLUSTERING", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_GRAPH_CLUSTERING", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_GRAPH_CLUSTERING", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 3, "__vmem_gb": 6 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_GRAPH_CLUSTERING/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_GRAPH_CLUSTERING/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_GRAPH_CLUSTERING/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "k_nearest": 140, "neighbor_index": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_GRAPH_CLUSTERING/fork0/split-u55c7843e92/files/neighbor_index.pickle", "row_start": 0, "submatrix": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_GRAPH_CLUSTERING/fork0/split-u55c7843e92/files/0_submatrix.h5", "total_rows": 1209, "use_bcs": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_GRAPH_CLUSTERING/fork0/split-u55c7843e92/files/use_bcs.h5" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_GRAPH_CLUSTERING/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "matrix_h5", "type": "h5", "valexp": "PREPROCESS_MATRIX.preprocessed_matrix_h5", "mode": "reference", "output": "preprocessed_matrix_h5", "sweep": false, "sweepRootId": "matrix_h5", "node": "PREPROCESS_MATRIX", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/PREPROCESS_MATRIX/fork0/join-u55c7843d8d/files/preprocessed_matrix_h5.h5", "waiting": false }, { "id": "neighbor_b", "type": "float", "valexp": "self.neighbor_b", "mode": "value", "output": "", "sweep": false, "sweepRootId": "neighbor_b", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "similarity_type", "type": "string", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "similarity_type", "node": "RUN_GRAPH_CLUSTERING", "matchedFork": 0, "value": "nn", "waiting": false }, { "id": "balltree_leaf_size", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "balltree_leaf_size", "node": "RUN_GRAPH_CLUSTERING", "matchedFork": 0, "value": null, "waiting": false }, { "id": "pca_h5", "type": "h5", "valexp": "CHOOSE_DIMENSION_REDUCTION_OUTPUT.pca_h5", "mode": "reference", "output": "pca_h5", "sweep": false, "sweepRootId": "pca_h5", "node": "CHOOSE_DIMENSION_REDUCTION_OUTPUT", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION_OUTPUT/fork0/chnk0-u55c7843e8d/files/pca_h5.h5", "waiting": false }, { "id": "num_neighbors", "type": "int", "valexp": "self.graphclust_neighbors", "mode": "value", "output": "", "sweep": false, "sweepRootId": "graphclust_neighbors", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "neighbor_a", "type": "float", "valexp": "self.neighbor_a", "mode": "value", "output": "", "sweep": false, "sweepRootId": "neighbor_a", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "input_pcs", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "input_pcs", "node": "RUN_GRAPH_CLUSTERING", "matchedFork": 0, "value": null, "waiting": false }, { "id": "num_bcs", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_bcs", "node": "RUN_GRAPH_CLUSTERING", "matchedFork": 0, "value": null, "waiting": false }, { "id": "skip", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.skip", "mode": "reference", "output": "skip", "sweep": false, "sweepRootId": "skip", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.ANALYZER_PREFLIGHT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/analyzer/run_graph_clustering" }, { "name": "RUN_KMEANS", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_KMEANS", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_KMEANS", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_KMEANS/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_KMEANS/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_KMEANS/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 3, "__threads": 1, "__vmem_gb": 6, "n_clusters": 2 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_KMEANS/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 1, "chunkDef": { "__mem_gb": 3, "__threads": 1, "__vmem_gb": 6, "n_clusters": 3 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_KMEANS/fork0/chnk1", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 2, "chunkDef": { "__mem_gb": 3, "__threads": 1, "__vmem_gb": 6, "n_clusters": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_KMEANS/fork0/chnk2", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 3, "chunkDef": { "__mem_gb": 3, "__threads": 1, "__vmem_gb": 6, "n_clusters": 5 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_KMEANS/fork0/chnk3", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 4, "chunkDef": { "__mem_gb": 3, "__threads": 1, "__vmem_gb": 6, "n_clusters": 6 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_KMEANS/fork0/chnk4", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 5, "chunkDef": { "__mem_gb": 3, "__threads": 1, "__vmem_gb": 6, "n_clusters": 7 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_KMEANS/fork0/chnk5", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 6, "chunkDef": { "__mem_gb": 3, "__threads": 1, "__vmem_gb": 6, "n_clusters": 8 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_KMEANS/fork0/chnk6", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 7, "chunkDef": { "__mem_gb": 3, "__threads": 1, "__vmem_gb": 6, "n_clusters": 9 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_KMEANS/fork0/chnk7", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 8, "chunkDef": { "__mem_gb": 3, "__threads": 1, "__vmem_gb": 6, "n_clusters": 10 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_KMEANS/fork0/chnk8", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "pca_h5", "type": "h5", "valexp": "CHOOSE_DIMENSION_REDUCTION_OUTPUT.pca_h5", "mode": "reference", "output": "pca_h5", "sweep": false, "sweepRootId": "pca_h5", "node": "CHOOSE_DIMENSION_REDUCTION_OUTPUT", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION_OUTPUT/fork0/chnk0-u55c7843e8d/files/pca_h5.h5", "waiting": false }, { "id": "random_seed", "type": "int", "valexp": "self.random_seed", "mode": "value", "output": "", "sweep": false, "sweepRootId": "random_seed", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "max_clusters", "type": "int", "valexp": "self.max_clusters", "mode": "value", "output": "", "sweep": false, "sweepRootId": "max_clusters", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "skip", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.skip", "mode": "reference", "output": "skip", "sweep": false, "sweepRootId": "skip", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false }, { "id": "num_bcs", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_bcs", "node": "RUN_KMEANS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "num_pcs", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_pcs", "node": "RUN_KMEANS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "matrix_h5", "type": "h5", "valexp": "PREPROCESS_MATRIX.preprocessed_matrix_h5", "mode": "reference", "output": "preprocessed_matrix_h5", "sweep": false, "sweepRootId": "matrix_h5", "node": "PREPROCESS_MATRIX", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/PREPROCESS_MATRIX/fork0/join-u55c7843d8d/files/preprocessed_matrix_h5.h5", "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.ANALYZER_PREFLIGHT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/analyzer/run_kmeans" }, { "name": "RUN_MULTIGENOME_ANALYSIS", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_MULTIGENOME_ANALYSIS", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_MULTIGENOME_ANALYSIS", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_MULTIGENOME_ANALYSIS", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_MULTIGENOME_ANALYSIS/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_MULTIGENOME_ANALYSIS/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_MULTIGENOME_ANALYSIS/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [], "bindings": { "Argument": [ { "id": "raw_matrices_h5", "type": "h5", "valexp": "self.raw_matrices_h5", "mode": "reference", "output": "matrices_h5", "sweep": false, "sweepRootId": "raw_matrices_h5", "node": "COUNT_GENES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/join-u55c78435e4/files/matrices_h5.h5", "waiting": false }, { "id": "filtered_matrices_h5", "type": "h5", "valexp": "self.filtered_matrices_h5", "mode": "reference", "output": "filtered_matrices_h5", "sweep": false, "sweepRootId": "filtered_matrices_h5", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_matrices_h5.h5", "waiting": false }, { "id": "is_multi_genome", "type": "bool", "valexp": "PREPROCESS_MATRIX.is_multi_genome", "mode": "reference", "output": "is_multi_genome", "sweep": false, "sweepRootId": "is_multi_genome", "node": "PREPROCESS_MATRIX", "matchedFork": 0, "value": false, "waiting": false }, { "id": "skip", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.skip", "mode": "reference", "output": "skip", "sweep": false, "sweepRootId": "skip", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_MULTIGENOME_ANALYSIS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_MULTIGENOME_ANALYSIS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.ANALYZER_PREFLIGHT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_MULTIGENOME_ANALYSIS" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/analyzer/run_multigenome_analysis" }, { "name": "RUN_PCA", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_PCA", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_PCA", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_PCA/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_PCA/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_PCA/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_PCA/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "matrix_h5", "type": "h5", "valexp": "PREPROCESS_MATRIX.preprocessed_matrix_h5", "mode": "reference", "output": "preprocessed_matrix_h5", "sweep": false, "sweepRootId": "matrix_h5", "node": "PREPROCESS_MATRIX", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/PREPROCESS_MATRIX/fork0/join-u55c7843d8d/files/preprocessed_matrix_h5.h5", "waiting": false }, { "id": "random_seed", "type": "int", "valexp": "self.random_seed", "mode": "value", "output": "", "sweep": false, "sweepRootId": "random_seed", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "num_bcs", "type": "int", "valexp": "self.num_pca_bcs", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_pca_bcs", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "num_genes", "type": "int", "valexp": "self.num_pca_genes", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_pca_genes", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "num_pcs", "type": "int", "valexp": "self.num_principal_comps", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_principal_comps", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "is_antibody_only", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.is_antibody_only", "mode": "reference", "output": "is_antibody_only", "sweep": false, "sweepRootId": "is_antibody_only", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false }, { "id": "skip", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.skip", "mode": "reference", "output": "skip", "sweep": false, "sweepRootId": "skip", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.ANALYZER_PREFLIGHT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/analyzer/run_pca" }, { "name": "RUN_TSNE", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_TSNE", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_TSNE", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_TSNE/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_TSNE/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_TSNE/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 3, "__threads": 1, "__vmem_gb": 6, "feature_type": "Gene Expression", "tsne_dims": 2 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_TSNE/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "is_antibody_only", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.is_antibody_only", "mode": "reference", "output": "is_antibody_only", "sweep": false, "sweepRootId": "is_antibody_only", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false }, { "id": "skip", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.skip", "mode": "reference", "output": "skip", "sweep": false, "sweepRootId": "skip", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false }, { "id": "random_seed", "type": "int", "valexp": "self.random_seed", "mode": "value", "output": "", "sweep": false, "sweepRootId": "random_seed", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "perplexity", "type": "int", "valexp": "self.tsne_perplexity", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_perplexity", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "mom_switch_iter", "type": "int", "valexp": "self.tsne_mom_switch_iter", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_mom_switch_iter", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "max_dims", "type": "int", "valexp": "self.tsne_max_dims", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_max_dims", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "max_iter", "type": "int", "valexp": "self.tsne_max_iter", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_max_iter", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "stop_lying_iter", "type": "int", "valexp": "self.tsne_stop_lying_iter", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_stop_lying_iter", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "theta", "type": "float", "valexp": "self.tsne_theta", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_theta", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "matrix_h5", "type": "h5", "valexp": "PREPROCESS_MATRIX.preprocessed_matrix_h5", "mode": "reference", "output": "preprocessed_matrix_h5", "sweep": false, "sweepRootId": "matrix_h5", "node": "PREPROCESS_MATRIX", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/PREPROCESS_MATRIX/fork0/join-u55c7843d8d/files/preprocessed_matrix_h5.h5", "waiting": false }, { "id": "pca_h5", "type": "h5", "valexp": "CHOOSE_DIMENSION_REDUCTION_OUTPUT.pca_h5", "mode": "reference", "output": "pca_h5", "sweep": false, "sweepRootId": "pca_h5", "node": "CHOOSE_DIMENSION_REDUCTION_OUTPUT", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION_OUTPUT/fork0/chnk0-u55c7843e8d/files/pca_h5.h5", "waiting": false }, { "id": "input_pcs", "type": "int", "valexp": "self.tsne_input_pcs", "mode": "value", "output": "", "sweep": false, "sweepRootId": "tsne_input_pcs", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.ANALYZER_PREFLIGHT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/analyzer/run_tsne" }, { "name": "RUN_UMAP", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_UMAP", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_UMAP", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_UMAP/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_UMAP/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_UMAP/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 3, "__threads": 4, "__vmem_gb": 6, "feature_type": "Gene Expression", "umap_dims": 2 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_UMAP/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "pca_h5", "type": "h5", "valexp": "CHOOSE_DIMENSION_REDUCTION_OUTPUT.pca_h5", "mode": "reference", "output": "pca_h5", "sweep": false, "sweepRootId": "pca_h5", "node": "CHOOSE_DIMENSION_REDUCTION_OUTPUT", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION_OUTPUT/fork0/chnk0-u55c7843e8d/files/pca_h5.h5", "waiting": false }, { "id": "n_neighbors", "type": "int", "valexp": "self.umap_n_neighbors", "mode": "value", "output": "", "sweep": false, "sweepRootId": "umap_n_neighbors", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "input_pcs", "type": "int", "valexp": "self.umap_input_pcs", "mode": "value", "output": "", "sweep": false, "sweepRootId": "umap_input_pcs", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "max_dims", "type": "int", "valexp": "self.umap_max_dims", "mode": "value", "output": "", "sweep": false, "sweepRootId": "umap_max_dims", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "min_dist", "type": "float", "valexp": "self.umap_min_dist", "mode": "value", "output": "", "sweep": false, "sweepRootId": "umap_min_dist", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "skip", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.skip", "mode": "reference", "output": "skip", "sweep": false, "sweepRootId": "skip", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false }, { "id": "matrix_h5", "type": "h5", "valexp": "PREPROCESS_MATRIX.preprocessed_matrix_h5", "mode": "reference", "output": "preprocessed_matrix_h5", "sweep": false, "sweepRootId": "matrix_h5", "node": "PREPROCESS_MATRIX", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/PREPROCESS_MATRIX/fork0/join-u55c7843d8d/files/preprocessed_matrix_h5.h5", "waiting": false }, { "id": "random_seed", "type": "int", "valexp": "self.random_seed", "mode": "value", "output": "", "sweep": false, "sweepRootId": "random_seed", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "metric", "type": "string", "valexp": "self.umap_metric", "mode": "value", "output": "", "sweep": false, "sweepRootId": "umap_metric", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "is_antibody_only", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.is_antibody_only", "mode": "reference", "output": "is_antibody_only", "sweep": false, "sweepRootId": "is_antibody_only", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.ANALYZER_PREFLIGHT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/analyzer/run_umap" }, { "name": "SUMMARIZE_ANALYSIS", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/SUMMARIZE_ANALYSIS", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/SUMMARIZE_ANALYSIS", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/SUMMARIZE_ANALYSIS/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/SUMMARIZE_ANALYSIS/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/SUMMARIZE_ANALYSIS/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 3, "__threads": 1, "__vmem_gb": 6 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/SUMMARIZE_ANALYSIS/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "batch_score_after_correction", "type": "float", "valexp": "CORRECT_CHEMISTRY_BATCH.batch_score_after_correction", "mode": "reference", "output": "batch_score_after_correction", "sweep": false, "sweepRootId": "batch_score_after_correction", "node": "CORRECT_CHEMISTRY_BATCH", "matchedFork": 0, "value": null, "waiting": false }, { "id": "clustering_h5", "type": "h5", "valexp": "COMBINE_CLUSTERING.clustering_h5", "mode": "reference", "output": "clustering_h5", "sweep": false, "sweepRootId": "clustering_h5", "node": "COMBINE_CLUSTERING", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/COMBINE_CLUSTERING/fork0/chnk0-u55c7843ece/files/clustering_h5.h5", "waiting": false }, { "id": "clustering_csv", "type": "path", "valexp": "COMBINE_CLUSTERING.clustering_csv", "mode": "reference", "output": "clustering_csv", "sweep": false, "sweepRootId": "clustering_csv", "node": "COMBINE_CLUSTERING", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/COMBINE_CLUSTERING/fork0/chnk0-u55c7843ece/files/clustering_csv", "waiting": false }, { "id": "tsne_csv", "type": "path", "valexp": "RUN_TSNE.tsne_csv", "mode": "reference", "output": "tsne_csv", "sweep": false, "sweepRootId": "tsne_csv", "node": "RUN_TSNE", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_TSNE/fork0/join-u55c7843e93/files/tsne_csv", "waiting": false }, { "id": "umap_h5", "type": "h5", "valexp": "RUN_UMAP.umap_h5", "mode": "reference", "output": "umap_h5", "sweep": false, "sweepRootId": "umap_h5", "node": "RUN_UMAP", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_UMAP/fork0/join-u55c7843e93/files/umap_h5.h5", "waiting": false }, { "id": "diffexp_csv", "type": "path", "valexp": "RUN_DIFFERENTIAL_EXPRESSION.diffexp_csv", "mode": "reference", "output": "diffexp_csv", "sweep": false, "sweepRootId": "diffexp_csv", "node": "RUN_DIFFERENTIAL_EXPRESSION", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_DIFFERENTIAL_EXPRESSION/fork0/join-u55c7843ed5/files/diffexp_csv", "waiting": false }, { "id": "umap_csv", "type": "path", "valexp": "RUN_UMAP.umap_csv", "mode": "reference", "output": "umap_csv", "sweep": false, "sweepRootId": "umap_csv", "node": "RUN_UMAP", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_UMAP/fork0/join-u55c7843e93/files/umap_csv", "waiting": false }, { "id": "multi_genome_csv", "type": "path", "valexp": "RUN_MULTIGENOME_ANALYSIS.multi_genome_csv", "mode": "reference", "output": "multi_genome_csv", "sweep": false, "sweepRootId": "multi_genome_csv", "node": "RUN_MULTIGENOME_ANALYSIS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_MULTIGENOME_ANALYSIS/fork0/join-u55c7843e77/files/multi_genome_csv", "waiting": false }, { "id": "is_multi_genome", "type": "bool", "valexp": "PREPROCESS_MATRIX.is_multi_genome", "mode": "reference", "output": "is_multi_genome", "sweep": false, "sweepRootId": "is_multi_genome", "node": "PREPROCESS_MATRIX", "matchedFork": 0, "value": false, "waiting": false }, { "id": "matrix_h5", "type": "h5", "valexp": "PREPROCESS_MATRIX.preprocessed_matrix_h5", "mode": "reference", "output": "preprocessed_matrix_h5", "sweep": false, "sweepRootId": "matrix_h5", "node": "PREPROCESS_MATRIX", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/PREPROCESS_MATRIX/fork0/join-u55c7843d8d/files/preprocessed_matrix_h5.h5", "waiting": false }, { "id": "diffexp_h5", "type": "h5", "valexp": "RUN_DIFFERENTIAL_EXPRESSION.diffexp_h5", "mode": "reference", "output": "diffexp_h5", "sweep": false, "sweepRootId": "diffexp_h5", "node": "RUN_DIFFERENTIAL_EXPRESSION", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_DIFFERENTIAL_EXPRESSION/fork0/join-u55c7843ed5/files/diffexp_h5.h5", "waiting": false }, { "id": "tsne_h5", "type": "h5", "valexp": "RUN_TSNE.tsne_h5", "mode": "reference", "output": "tsne_h5", "sweep": false, "sweepRootId": "tsne_h5", "node": "RUN_TSNE", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_TSNE/fork0/join-u55c7843e93/files/tsne_h5.h5", "waiting": false }, { "id": "pca_h5", "type": "h5", "valexp": "CHOOSE_DIMENSION_REDUCTION_OUTPUT.pca_h5", "mode": "reference", "output": "pca_h5", "sweep": false, "sweepRootId": "pca_h5", "node": "CHOOSE_DIMENSION_REDUCTION_OUTPUT", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION_OUTPUT/fork0/chnk0-u55c7843e8d/files/pca_h5.h5", "waiting": false }, { "id": "multi_genome_summary", "type": "json", "valexp": "RUN_MULTIGENOME_ANALYSIS.multi_genome_summary", "mode": "reference", "output": "multi_genome_summary", "sweep": false, "sweepRootId": "multi_genome_summary", "node": "RUN_MULTIGENOME_ANALYSIS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_MULTIGENOME_ANALYSIS/fork0/join-u55c7843e77/files/multi_genome_summary.json", "waiting": false }, { "id": "chemistry_batch_correction", "type": "bool", "valexp": "self.chemistry_batch_correction", "mode": "value", "output": "", "sweep": false, "sweepRootId": "chemistry_batch_correction", "node": "SC_RNA_ANALYZER", "matchedFork": 0, "value": false, "waiting": false }, { "id": "skip", "type": "bool", "valexp": "ANALYZER_PREFLIGHT.skip", "mode": "reference", "output": "skip", "sweep": false, "sweepRootId": "skip", "node": "ANALYZER_PREFLIGHT", "matchedFork": 0, "value": false, "waiting": false }, { "id": "pca_csv", "type": "path", "valexp": "CHOOSE_DIMENSION_REDUCTION_OUTPUT.pca_csv", "mode": "reference", "output": "pca_csv", "sweep": false, "sweepRootId": "pca_csv", "node": "CHOOSE_DIMENSION_REDUCTION_OUTPUT", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/CHOOSE_DIMENSION_REDUCTION_OUTPUT/fork0/chnk0-u55c7843e8d/files/pca_csv", "waiting": false }, { "id": "multi_genome_json", "type": "path", "valexp": "RUN_MULTIGENOME_ANALYSIS.multi_genome_json", "mode": "reference", "output": "multi_genome_json", "sweep": false, "sweepRootId": "multi_genome_json", "node": "RUN_MULTIGENOME_ANALYSIS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/RUN_MULTIGENOME_ANALYSIS/fork0/join-u55c7843e77/files/multi_genome_json", "waiting": false }, { "id": "batch_score_before_correction", "type": "float", "valexp": "CORRECT_CHEMISTRY_BATCH.batch_score_before_correction", "mode": "reference", "output": "batch_score_before_correction", "sweep": false, "sweepRootId": "batch_score_before_correction", "node": "CORRECT_CHEMISTRY_BATCH", "matchedFork": 0, "value": null, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CORRECT_CHEMISTRY_BATCH", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.COMBINE_CLUSTERING", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_MULTIGENOME_ANALYSIS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.ANALYZER_PREFLIGHT", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/analyzer/summarize_analysis" }, { "name": "SETUP_CHUNKS", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SETUP_CHUNKS", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SETUP_CHUNKS", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SETUP_CHUNKS/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SETUP_CHUNKS/fork0/split", "names": [ "args", "complete", "stage_defs" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SETUP_CHUNKS/fork0/join", "names": [ "args", "chunk_defs", "complete", "outs" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SETUP_CHUNKS/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "custom_chemistry_def", "type": "map", "valexp": "self.custom_chemistry_def", "mode": "value", "output": "", "sweep": false, "sweepRootId": "custom_chemistry_def", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "default_library_type", "type": "string", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "default_library_type", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "sample_id", "type": "string", "valexp": "self.sample_id", "mode": "value", "output": "", "sweep": false, "sweepRootId": "sample_id", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "10X_G171C_pcgonly_UseThis", "waiting": false }, { "id": "sample_def", "type": "map", "valexp": "self.sample_def", "mode": "reference", "output": "sample_def", "sweep": false, "sweepRootId": "sample_def", "node": "EXPAND_SAMPLE_DEF", "matchedFork": 0, "value": [ { "gem_group": null, "lanes": null, "sample_names": [ "G171C" ], "sample_indices": [ "any" ], "fastq_mode": "ILMN_BCL2FASTQ", "read_path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX" } ], "waiting": false }, { "id": "library_type_filter", "type": "string", "valexp": "self.library_type_filter", "mode": "value", "output": "", "sweep": false, "sweepRootId": "library_type_filter", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "chemistry_name", "type": "string", "valexp": "CHEMISTRY_DETECTOR.chemistry_type", "mode": "reference", "output": "chemistry_type", "sweep": false, "sweepRootId": "chemistry_name", "node": "DETECT_CHEMISTRY", "matchedFork": 0, "value": "SC3Pv3", "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/common/setup_chunks" }, { "name": "SUMMARIZE_REPORTS", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SUMMARIZE_REPORTS", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SUMMARIZE_REPORTS", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SUMMARIZE_REPORTS", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 4, "__vmem_gb": 7 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SUMMARIZE_REPORTS/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SUMMARIZE_REPORTS/fork0/split", "names": [ "args", "complete", "stage_defs" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SUMMARIZE_REPORTS/fork0/join", "names": [ "args", "chunk_defs", "complete", "outs" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SUMMARIZE_REPORTS/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "analysis", "type": "path", "valexp": "SC_RNA_ANALYZER.analysis", "mode": "reference", "output": "analysis", "sweep": false, "sweepRootId": "analysis", "node": "SUMMARIZE_ANALYSIS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/SUMMARIZE_ANALYSIS/fork0/join-u55c7843f2f/files/analysis", "waiting": false }, { "id": "barcode_summary_h5", "type": "h5", "valexp": "_BASIC_SC_RNA_COUNTER.barcode_summary", "mode": "reference", "output": "barcode_summary", "sweep": false, "sweepRootId": "barcode_summary_h5", "node": "COUNT_GENES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/join-u55c78435e4/files/barcode_summary.h5", "waiting": false }, { "id": "filtered_gene_bc_matrices_h5", "type": "h5", "valexp": "_BASIC_SC_RNA_COUNTER.filtered_gene_bc_matrices_h5", "mode": "reference", "output": "filtered_matrices_h5", "sweep": false, "sweepRootId": "filtered_gene_bc_matrices_h5", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_matrices_h5.h5", "waiting": false }, { "id": "gem_groups", "type": "int", "valexp": "_BASIC_SC_RNA_COUNTER.gem_groups", "mode": "reference", "output": "gem_groups", "sweep": false, "sweepRootId": "gem_groups", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": [ 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1 ], "waiting": false }, { "id": "summaries", "type": "json", "valexp": "", "mode": "array", "output": "", "sweep": false, "sweepRootId": "summaries", "node": "SUMMARIZE_REPORTS", "matchedFork": 0, "value": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_BASIC_REPORTS/fork0/join-u55c784402e/files/summary.json", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/SC_RNA_ANALYZER/SUMMARIZE_ANALYSIS/fork0/join-u55c7843f2f/files/summary.json", null ], "waiting": false }, { "id": "sample_id", "type": "string", "valexp": "self.sample_id", "mode": "value", "output": "", "sweep": false, "sweepRootId": "sample_id", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "10X_G171C_pcgonly_UseThis", "waiting": false }, { "id": "sample_desc", "type": "string", "valexp": "self.sample_desc", "mode": "value", "output": "", "sweep": false, "sweepRootId": "sample_desc", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "", "waiting": false }, { "id": "reference_path", "type": "path", "valexp": "self.reference_path", "mode": "value", "output": "", "sweep": false, "sweepRootId": "reference_path", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/mm10_premrna_v1.0_pcg-only", "waiting": false }, { "id": "filtered_barcodes", "type": "csv", "valexp": "_BASIC_SC_RNA_COUNTER.filtered_barcodes", "mode": "reference", "output": "filtered_barcodes", "sweep": false, "sweepRootId": "filtered_barcodes", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_barcodes.csv", "waiting": false }, { "id": "barcode_whitelist", "type": "string", "valexp": "SETUP_CHUNKS.barcode_whitelist", "mode": "reference", "output": "barcode_whitelist", "sweep": false, "sweepRootId": "barcode_whitelist", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": "3M-february-2018", "waiting": false }, { "id": "feature_reference", "type": "csv", "valexp": "self.feature_reference", "mode": "value", "output": "", "sweep": false, "sweepRootId": "feature_reference", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SUMMARIZE_REPORTS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SUMMARIZE_REPORTS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SUMMARIZE_REPORTS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SUMMARIZE_REPORTS" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/counter/summarize_reports" }, { "name": "_BASIC_SC_RNA_COUNTER", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER", "type": "pipeline", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": null, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/fork0/split", "names": [] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/fork0/join", "names": [] }, "chunks": [], "bindings": { "Argument": [ { "id": "barcode_whitelist", "type": "string", "valexp": "SETUP_CHUNKS.barcode_whitelist", "mode": "reference", "output": "barcode_whitelist", "sweep": false, "sweepRootId": "barcode_whitelist", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": "3M-february-2018", "waiting": false }, { "id": "barcode_confidence_threshold", "type": "float", "valexp": "self.barcode_confidence_threshold", "mode": "value", "output": "", "sweep": false, "sweepRootId": "barcode_confidence_threshold", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": 0.975, "waiting": false }, { "id": "recovered_cells", "type": "int", "valexp": "self.recovered_cells", "mode": "value", "output": "", "sweep": false, "sweepRootId": "recovered_cells", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": 5000, "waiting": false }, { "id": "skip_translate", "type": "map", "valexp": "CHECK_BARCODES_COMPATIBILITY.skip_translate", "mode": "reference", "output": "skip_translate", "sweep": false, "sweepRootId": "skip_translate", "node": "CHECK_BARCODES_COMPATIBILITY", "matchedFork": 0, "value": {}, "waiting": false }, { "id": "primers", "type": "map", "valexp": "self.primers", "mode": "value", "output": "", "sweep": false, "sweepRootId": "primers", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": [ { "name": "P5", "seq": "AATGATACGGCGACCACCGAGATCT" }, { "name": "P7", "seq": "CAAGCAGAAGACGGCATACGAGAT" }, { "name": "R1", "seq": "ACACTCTTTCCCTACACGACG" }, { "name": "R2", "seq": "GTGACTGGAGTTCAGACGTGTG" }, { "name": "switch_oligo", "seq": "AAGCAGTGGTATCAACGCAGAGTACATGGG" }, { "name": "polyA", "seq": "AAAAAAAAAAAAAAAAAAAA" } ], "waiting": false }, { "id": "align", "type": "map", "valexp": "self.align", "mode": "value", "output": "", "sweep": false, "sweepRootId": "align", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": { "aligner": "star", "high_conf_mapq": null }, "waiting": false }, { "id": "retain_fastqs", "type": "bool", "valexp": "self.retain_fastqs", "mode": "value", "output": "", "sweep": false, "sweepRootId": "retain_fastqs", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": false, "waiting": false }, { "id": "chunks", "type": "map", "valexp": "SETUP_CHUNKS.chunks", "mode": "reference", "output": "chunks", "sweep": false, "sweepRootId": "chunks", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": [ { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX/G171C_S2_L007_I1_001.fastq.gz", "I2": null, "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX/G171C_S2_L007_R1_001.fastq.gz", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX/G171C_S2_L007_R2_001.fastq.gz" }, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "reads_interleaved": false } ], "waiting": false }, { "id": "r1_length", "type": "int", "valexp": "self.r1_length", "mode": "value", "output": "", "sweep": false, "sweepRootId": "r1_length", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "umi_min_qual_threshold", "type": "int", "valexp": "self.umi_min_qual_threshold", "mode": "value", "output": "", "sweep": false, "sweepRootId": "umi_min_qual_threshold", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": 10, "waiting": false }, { "id": "rescue_multimappers", "type": "bool", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "rescue_multimappers", "node": "_BASIC_SC_RNA_COUNTER", "matchedFork": 0, "value": true, "waiting": false }, { "id": "subsample_rate", "type": "float", "valexp": "self.subsample_rate", "mode": "value", "output": "", "sweep": false, "sweepRootId": "subsample_rate", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": 1, "waiting": false }, { "id": "skip_metrics", "type": "bool", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "skip_metrics", "node": "_BASIC_SC_RNA_COUNTER", "matchedFork": 0, "value": false, "waiting": false }, { "id": "annotation_params", "type": "map", "valexp": "self.annotation_params", "mode": "value", "output": "", "sweep": false, "sweepRootId": "annotation_params", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "library_info", "type": "map", "valexp": "SETUP_CHUNKS.library_info", "mode": "reference", "output": "library_info", "sweep": false, "sweepRootId": "library_info", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": [ { "gem_group": 1, "library_id": "0", "library_type": "Gene Expression" } ], "waiting": false }, { "id": "sample_id", "type": "string", "valexp": "self.sample_id", "mode": "value", "output": "", "sweep": false, "sweepRootId": "sample_id", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "10X_G171C_pcgonly_UseThis", "waiting": false }, { "id": "chemistry_def", "type": "map", "valexp": "SETUP_CHUNKS.chemistry_def", "mode": "reference", "output": "chemistry_def", "sweep": false, "sweepRootId": "chemistry_def", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "waiting": false }, { "id": "align_threads", "type": "int", "valexp": "self.align_threads", "mode": "value", "output": "", "sweep": false, "sweepRootId": "align_threads", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": 4, "waiting": false }, { "id": "initial_reads", "type": "int", "valexp": "self.initial_reads", "mode": "value", "output": "", "sweep": false, "sweepRootId": "initial_reads", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "reference_path", "type": "path", "valexp": "self.reference_path", "mode": "value", "output": "", "sweep": false, "sweepRootId": "reference_path", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/mm10_premrna_v1.0_pcg-only", "waiting": false }, { "id": "force_cells", "type": "int", "valexp": "self.force_cells", "mode": "value", "output": "", "sweep": false, "sweepRootId": "force_cells", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "cell_barcodes", "type": "json", "valexp": "self.cell_barcodes", "mode": "value", "output": "", "sweep": false, "sweepRootId": "cell_barcodes", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "correct_barcodes", "type": "bool", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "correct_barcodes", "node": "_BASIC_SC_RNA_COUNTER", "matchedFork": 0, "value": true, "waiting": false }, { "id": "filter_umis", "type": "bool", "valexp": "self.filter_umis", "mode": "value", "output": "", "sweep": false, "sweepRootId": "filter_umis", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": true, "waiting": false }, { "id": "feature_reference", "type": "csv", "valexp": "self.feature_reference", "mode": "value", "output": "", "sweep": false, "sweepRootId": "feature_reference", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "is_antibody_only", "type": "bool", "valexp": "CHEMISTRY_DETECTOR.is_antibody_only", "mode": "reference", "output": "is_antibody_only", "sweep": false, "sweepRootId": "is_antibody_only", "node": "DETECT_CHEMISTRY", "matchedFork": 0, "value": false, "waiting": false }, { "id": "r2_length", "type": "int", "valexp": "self.r2_length", "mode": "value", "output": "", "sweep": false, "sweepRootId": "r2_length", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false } ], "Return": [ { "id": "molecule_info", "type": "h5", "valexp": "REPORT_MOLECULES.output", "mode": "reference", "output": "output", "sweep": false, "sweepRootId": "molecule_info", "node": "REPORT_MOLECULES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/join-u55c7843d69/files/output.h5", "waiting": false }, { "id": "raw_gene_bc_matrices_mex", "type": "path", "valexp": "COUNT_GENES.matrices_mex", "mode": "reference", "output": "matrices_mex", "sweep": false, "sweepRootId": "raw_gene_bc_matrices_mex", "node": "COUNT_GENES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/join-u55c78435e4/files/matrices_mex", "waiting": false }, { "id": "filtered_gene_bc_matrices_h5", "type": "h5", "valexp": "FILTER_BARCODES.filtered_matrices_h5", "mode": "reference", "output": "filtered_matrices_h5", "sweep": false, "sweepRootId": "filtered_gene_bc_matrices_h5", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_matrices_h5.h5", "waiting": false }, { "id": "gem_groups", "type": "int", "valexp": "SUMMARIZE_READ_REPORTS.gem_groups", "mode": "reference", "output": "gem_groups", "sweep": false, "sweepRootId": "gem_groups", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": [ 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1 ], "waiting": false }, { "id": "read1s", "type": "fastq", "valexp": "SUMMARIZE_READ_REPORTS.read1s", "mode": "reference", "output": "read1s", "sweep": false, "sweepRootId": "read1s", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk00-u55c78419ac/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk01-u55c78419ac/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk02-u55c78419ac/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk03-u55c78419ac/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk04-u55c78419ac/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk05-u55c78419ac/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk06-u55c78419ac/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk07-u55c78419ac/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk08-u55c78419ac/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk09-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk10-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk11-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk12-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk13-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk14-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk15-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk16-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk17-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk18-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk19-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk20-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk21-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk22-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk23-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk24-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk25-u55c78419ad/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk26-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk27-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk28-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk29-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk30-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk31-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk32-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk33-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk34-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk35-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk36-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk37-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk38-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk39-u55c78419ae/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk40-u55c78419af/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk41-u55c78419af/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk42-u55c78419af/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk43-u55c78419af/files/read1s.fastq", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk44-u55c78419af/files/read1s.fastq" ], "waiting": false }, { "id": "possorted_genome_bam_index", "type": "bam.bai", "valexp": "SORT_BY_POS.index", "mode": "reference", "output": "index", "sweep": false, "sweepRootId": "possorted_genome_bam_index", "node": "SORT_BY_POS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/join-u55c78435e3/files/output.bam.bai", "waiting": false }, { "id": "summary", "type": "json", "valexp": "SUMMARIZE_BASIC_REPORTS.summary", "mode": "reference", "output": "summary", "sweep": false, "sweepRootId": "summary", "node": "SUMMARIZE_BASIC_REPORTS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_BASIC_REPORTS/fork0/join-u55c784402e/files/summary.json", "waiting": false }, { "id": "barcode_summary", "type": "h5", "valexp": "COUNT_GENES.barcode_summary", "mode": "reference", "output": "barcode_summary", "sweep": false, "sweepRootId": "barcode_summary", "node": "COUNT_GENES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/join-u55c78435e4/files/barcode_summary.h5", "waiting": false }, { "id": "align", "type": "map", "valexp": "SUMMARIZE_READ_REPORTS.align", "mode": "reference", "output": "align", "sweep": false, "sweepRootId": "align", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": { "aligner": "star", "high_conf_mapq": 255 }, "waiting": false }, { "id": "filtered_barcodes", "type": "csv", "valexp": "FILTER_BARCODES.filtered_barcodes", "mode": "reference", "output": "filtered_barcodes", "sweep": false, "sweepRootId": "filtered_barcodes", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_barcodes.csv", "waiting": false }, { "id": "barcode_correction_csv", "type": "csv", "valexp": "MARK_DUPLICATES.barcode_summary", "mode": "reference", "output": "barcode_summary", "sweep": false, "sweepRootId": "barcode_correction_csv", "node": "MARK_DUPLICATES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/join-u55c784348a/files/barcode_summary.csv", "waiting": false }, { "id": "possorted_genome_bam", "type": "bam", "valexp": "SORT_BY_POS.output", "mode": "reference", "output": "output", "sweep": false, "sweepRootId": "possorted_genome_bam", "node": "SORT_BY_POS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/join-u55c78435e3/files/output.bam", "waiting": false }, { "id": "raw_gene_bc_matrices_h5", "type": "h5", "valexp": "COUNT_GENES.matrices_h5", "mode": "reference", "output": "matrices_h5", "sweep": false, "sweepRootId": "raw_gene_bc_matrices_h5", "node": "COUNT_GENES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/join-u55c78435e4/files/matrices_h5.h5", "waiting": false }, { "id": "filtered_gene_bc_matrices_mex", "type": "path", "valexp": "FILTER_BARCODES.filtered_matrices_mex", "mode": "reference", "output": "filtered_matrices_mex", "sweep": false, "sweepRootId": "filtered_gene_bc_matrices_mex", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_matrices_mex", "waiting": false } ] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHECK_BARCODES_COMPATIBILITY", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.COUNT_GENES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.FILTER_BARCODES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.MARK_DUPLICATES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER" } ], "stagecodeLang": "", "stagecodeCmd": "" }, { "name": "ALIGN_READS", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ALIGN_READS", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk00-u55c78414d0/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk00", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 1, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk01-u55c78414d0/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk01", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 2, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk02-u55c78414d1/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk02", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 3, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk03-u55c78414d1/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk03", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 4, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk04-u55c78414d1/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk04", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 5, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk05-u55c78414d1/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk05", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 6, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk06-u55c78414d1/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk06", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 7, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk07-u55c78414d2/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk07", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 8, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk08-u55c78414d2/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk08", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 9, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk09-u55c78414d2/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk09", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 10, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk10-u55c78414d2/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk10", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 11, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk11-u55c78414d2/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk11", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 12, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk12-u55c78414d2/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk12", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 13, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk13-u55c78414d2/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk13", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 14, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk14-u55c78414d3/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk14", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 15, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk15-u55c78414d3/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk15", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 16, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk16-u55c78414d3/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk16", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 17, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk17-u55c78414d3/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk17", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 18, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk18-u55c78414d3/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk18", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 19, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk19-u55c78414d3/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk19", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 20, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk20-u55c78414d3/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk20", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 21, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk21-u55c78414d3/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk21", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 22, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk22-u55c78414d3/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk22", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 23, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk23-u55c78414d4/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk23", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 24, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk24-u55c78414d4/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk24", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 25, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk25-u55c78414d4/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk25", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 26, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk26-u55c78414d4/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk26", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 27, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk27-u55c78414d4/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk27", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 28, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk28-u55c78414d4/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk28", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 29, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk29-u55c78414d4/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk29", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 30, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk30-u55c78414d5/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk30", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 31, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk31-u55c78414d5/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk31", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 32, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk32-u55c78414d5/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk32", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 33, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk33-u55c78414d5/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk33", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 34, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk34-u55c78414d5/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk34", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 35, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk35-u55c78414d5/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk35", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 36, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk36-u55c78414d5/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk36", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 37, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk37-u55c78414d5/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk37", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 38, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk38-u55c78414d5/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk38", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 39, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk39-u55c78414d6/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk39", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 40, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk40-u55c78414d6/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk40", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 41, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk41-u55c78414d6/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk41", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 42, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk42-u55c78414d6/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk42", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 43, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk43-u55c78414d6/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk43", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 44, "chunkDef": { "__mem_gb": 16, "__threads": 4, "__vmem_gb": 19, "library_type": "Gene Expression", "read2_chunk": null, "read_chunk": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk44-u55c78414d6/files/reads.fastq/1.fastq.lz4", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk44", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "read2s", "type": "fastq", "valexp": "EXTRACT_READS.read2s", "mode": "reference", "output": "read2s", "sweep": false, "sweepRootId": "read2s", "node": "EXTRACT_READS", "matchedFork": 0, "value": [], "waiting": false }, { "id": "read_groups", "type": "string", "valexp": "SUMMARIZE_READ_REPORTS.read_groups", "mode": "reference", "output": "read_groups", "sweep": false, "sweepRootId": "read_groups", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": [ "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" ], "waiting": false }, { "id": "library_types", "type": "string", "valexp": "SUMMARIZE_READ_REPORTS.library_types", "mode": "reference", "output": "library_types", "sweep": false, "sweepRootId": "library_types", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": [ "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression" ], "waiting": false }, { "id": "reference_path", "type": "path", "valexp": "self.reference_path", "mode": "value", "output": "", "sweep": false, "sweepRootId": "reference_path", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/mm10_premrna_v1.0_pcg-only", "waiting": false }, { "id": "threads", "type": "int", "valexp": "self.align_threads", "mode": "value", "output": "", "sweep": false, "sweepRootId": "align_threads", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": 4, "waiting": false }, { "id": "max_hits_per_read", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "max_hits_per_read", "node": "ALIGN_READS", "matchedFork": 0, "value": -1, "waiting": false }, { "id": "reads", "type": "fastq", "valexp": "EXTRACT_READS.reads", "mode": "reference", "output": "reads", "sweep": false, "sweepRootId": "reads", "node": "EXTRACT_READS", "matchedFork": 0, "value": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk00-u55c78414d0/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk01-u55c78414d0/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk02-u55c78414d1/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk03-u55c78414d1/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk04-u55c78414d1/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk05-u55c78414d1/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk06-u55c78414d1/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk07-u55c78414d2/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk08-u55c78414d2/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk09-u55c78414d2/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk10-u55c78414d2/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk11-u55c78414d2/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk12-u55c78414d2/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk13-u55c78414d2/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk14-u55c78414d3/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk15-u55c78414d3/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk16-u55c78414d3/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk17-u55c78414d3/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk18-u55c78414d3/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk19-u55c78414d3/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk20-u55c78414d3/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk21-u55c78414d3/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk22-u55c78414d3/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk23-u55c78414d4/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk24-u55c78414d4/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk25-u55c78414d4/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk26-u55c78414d4/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk27-u55c78414d4/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk28-u55c78414d4/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk29-u55c78414d4/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk30-u55c78414d5/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk31-u55c78414d5/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk32-u55c78414d5/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk33-u55c78414d5/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk34-u55c78414d5/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk35-u55c78414d5/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk36-u55c78414d5/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk37-u55c78414d5/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk38-u55c78414d5/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk39-u55c78414d6/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk40-u55c78414d6/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk41-u55c78414d6/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk42-u55c78414d6/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk43-u55c78414d6/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk44-u55c78414d6/files/reads.fastq/1.fastq.lz4" ], "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ALIGN_READS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ALIGN_READS" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/counter/align_reads" }, { "name": "ATTACH_BCS_AND_UMIS", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 12, "__vmem_gb": 15 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk00-u55c7841a2e/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk00-u55c78419ac/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk00", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 1, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk01-u55c7841a2e/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk01-u55c78419ac/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk01", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 2, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk02-u55c7841a2f/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk02-u55c78419ac/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk02", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 3, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk03-u55c7841a2f/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk03-u55c78419ac/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk03", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 4, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk04-u55c7841a2f/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk04-u55c78419ac/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk04", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 5, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk05-u55c7841a2f/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk05-u55c78419ac/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk05", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 6, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk06-u55c7841a2f/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk06-u55c78419ac/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk06", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 7, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk07-u55c7841a2f/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk07-u55c78419ac/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk07", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 8, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk08-u55c7841a2f/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk08-u55c78419ac/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk08", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 9, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk09-u55c7841a2f/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk09-u55c78419ad/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk09", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 10, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk10-u55c7841a31/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk10-u55c78419ad/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk10", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 11, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk11-u55c7841a31/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk11-u55c78419ad/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk11", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 12, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk12-u55c7841a31/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk12-u55c78419ad/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk12", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 13, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk13-u55c7841a31/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk13-u55c78419ad/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk13", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 14, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk14-u55c7841a31/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk14-u55c78419ad/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk14", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 15, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk15-u55c7841a31/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk15-u55c78419ad/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk15", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 16, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk16-u55c7841a32/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk16-u55c78419ad/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk16", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 17, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk17-u55c7841a32/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk17-u55c78419ad/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk17", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 18, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk18-u55c7841a32/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk18-u55c78419ad/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk18", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 19, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk19-u55c7841a32/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk19-u55c78419ad/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk19", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 20, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk20-u55c7841a32/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk20-u55c78419ad/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk20", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 21, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk21-u55c7841a32/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk21-u55c78419ad/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk21", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 22, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk22-u55c7841a33/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk22-u55c78419ad/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk22", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 23, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk23-u55c7841a33/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk23-u55c78419ad/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk23", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 24, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk24-u55c7841a33/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk24-u55c78419ad/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk24", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 25, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk25-u55c7841a33/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk25-u55c78419ad/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk25", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 26, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk26-u55c7841a33/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk26-u55c78419ae/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk26", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 27, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk27-u55c7841a33/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk27-u55c78419ae/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk27", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 28, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk28-u55c7841a33/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk28-u55c78419ae/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk28", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 29, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk29-u55c7841a33/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk29-u55c78419ae/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk29", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 30, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk30-u55c7841a33/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk30-u55c78419ae/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk30", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 31, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk31-u55c7841a33/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk31-u55c78419ae/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk31", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 32, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk32-u55c7841a33/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk32-u55c78419ae/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk32", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 33, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk33-u55c7841a33/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk33-u55c78419ae/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk33", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 34, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk34-u55c7841a33/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk34-u55c78419ae/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk34", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 35, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk35-u55c7841a34/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk35-u55c78419ae/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk35", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 36, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk36-u55c7841a34/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk36-u55c78419ae/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk36", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 37, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk37-u55c7841a34/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk37-u55c78419ae/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk37", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 38, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk38-u55c7841a34/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk38-u55c78419ae/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk38", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 39, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk39-u55c7841a34/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk39-u55c78419ae/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk39", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 40, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk40-u55c7841a34/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk40-u55c78419af/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk40", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 41, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk41-u55c7841a34/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk41-u55c78419af/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk41", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 42, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk42-u55c7841a35/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk42-u55c78419af/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk42", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 43, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk43-u55c7841a35/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk43-u55c78419af/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk43", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 44, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_comments_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/bam_comments.json", "chunk_genome_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk44-u55c7841a36/files/genome_output.bam", "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk44-u55c78419af/files/tags.fastq.lz4", "gem_group": 1, "library_id": "0", "library_info_json": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/split-u55c78424bd/files/libraries.json", "library_type": "Gene Expression", "skip_translate": true }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk44", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "skip_translate", "type": "map", "valexp": "self.skip_translate", "mode": "reference", "output": "skip_translate", "sweep": false, "sweepRootId": "skip_translate", "node": "CHECK_BARCODES_COMPATIBILITY", "matchedFork": 0, "value": {}, "waiting": false }, { "id": "reference_path", "type": "path", "valexp": "self.reference_path", "mode": "value", "output": "", "sweep": false, "sweepRootId": "reference_path", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/mm10_premrna_v1.0_pcg-only", "waiting": false }, { "id": "feature_reference", "type": "csv", "valexp": "self.feature_reference", "mode": "value", "output": "", "sweep": false, "sweepRootId": "feature_reference", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "gem_groups", "type": "int", "valexp": "SUMMARIZE_READ_REPORTS.gem_groups", "mode": "reference", "output": "gem_groups", "sweep": false, "sweepRootId": "gem_groups", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": [ 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1 ], "waiting": false }, { "id": "barcode_confidence_threshold", "type": "float", "valexp": "self.barcode_confidence_threshold", "mode": "value", "output": "", "sweep": false, "sweepRootId": "barcode_confidence_threshold", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": 0.975, "waiting": false }, { "id": "skip_metrics", "type": "bool", "valexp": "self.skip_metrics", "mode": "value", "output": "", "sweep": false, "sweepRootId": "skip_metrics", "node": "_BASIC_SC_RNA_COUNTER", "matchedFork": 0, "value": false, "waiting": false }, { "id": "library_info", "type": "map", "valexp": "self.library_info", "mode": "reference", "output": "library_info", "sweep": false, "sweepRootId": "library_info", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": [ { "gem_group": 1, "library_id": "0", "library_type": "Gene Expression" } ], "waiting": false }, { "id": "library_types", "type": "string", "valexp": "SUMMARIZE_READ_REPORTS.library_types", "mode": "reference", "output": "library_types", "sweep": false, "sweepRootId": "library_types", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": [ "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression" ], "waiting": false }, { "id": "library_ids", "type": "string", "valexp": "SUMMARIZE_READ_REPORTS.library_ids", "mode": "reference", "output": "library_ids", "sweep": false, "sweepRootId": "library_ids", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": [ "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0" ], "waiting": false }, { "id": "barcode_whitelist", "type": "string", "valexp": "self.barcode_whitelist", "mode": "reference", "output": "barcode_whitelist", "sweep": false, "sweepRootId": "barcode_whitelist", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": "3M-february-2018", "waiting": false }, { "id": "bam_comments", "type": "string", "valexp": "SUMMARIZE_READ_REPORTS.bam_comments", "mode": "reference", "output": "bam_comments", "sweep": false, "sweepRootId": "bam_comments", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": [ "10x_bam_to_fastq:I1(BC:QT)", "10x_bam_to_fastq:R1(CR:CY,UR:UY)", "10x_bam_to_fastq:R2(SEQ:QUAL)" ], "waiting": false }, { "id": "rescue_multimappers", "type": "bool", "valexp": "self.rescue_multimappers", "mode": "value", "output": "", "sweep": false, "sweepRootId": "rescue_multimappers", "node": "_BASIC_SC_RNA_COUNTER", "matchedFork": 0, "value": true, "waiting": false }, { "id": "barcode_counts", "type": "json", "valexp": "SUMMARIZE_READ_REPORTS.barcode_counts", "mode": "reference", "output": "barcode_counts", "sweep": false, "sweepRootId": "barcode_counts", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/join-u55c78419a9/files/barcode_counts.json", "waiting": false }, { "id": "feature_counts", "type": "json", "valexp": "SUMMARIZE_READ_REPORTS.feature_counts", "mode": "reference", "output": "feature_counts", "sweep": false, "sweepRootId": "feature_counts", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/join-u55c78419a9/files/feature_counts.json", "waiting": false }, { "id": "is_antibody_only", "type": "bool", "valexp": "self.is_antibody_only", "mode": "reference", "output": "is_antibody_only", "sweep": false, "sweepRootId": "is_antibody_only", "node": "DETECT_CHEMISTRY", "matchedFork": 0, "value": false, "waiting": false }, { "id": "correct_barcodes", "type": "bool", "valexp": "self.correct_barcodes", "mode": "value", "output": "", "sweep": false, "sweepRootId": "correct_barcodes", "node": "_BASIC_SC_RNA_COUNTER", "matchedFork": 0, "value": true, "waiting": false }, { "id": "genome_inputs", "type": "bam", "valexp": "ALIGN_READS.genome_output", "mode": "reference", "output": "genome_output", "sweep": false, "sweepRootId": "genome_inputs", "node": "ALIGN_READS", "matchedFork": 0, "value": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk00-u55c7841a2e/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk01-u55c7841a2e/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk02-u55c7841a2f/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk03-u55c7841a2f/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk04-u55c7841a2f/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk05-u55c7841a2f/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk06-u55c7841a2f/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk07-u55c7841a2f/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk08-u55c7841a2f/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk09-u55c7841a2f/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk10-u55c7841a31/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk11-u55c7841a31/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk12-u55c7841a31/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk13-u55c7841a31/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk14-u55c7841a31/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk15-u55c7841a31/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk16-u55c7841a32/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk17-u55c7841a32/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk18-u55c7841a32/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk19-u55c7841a32/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk20-u55c7841a32/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk21-u55c7841a32/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk22-u55c7841a33/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk23-u55c7841a33/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk24-u55c7841a33/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk25-u55c7841a33/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk26-u55c7841a33/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk27-u55c7841a33/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk28-u55c7841a33/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk29-u55c7841a33/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk30-u55c7841a33/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk31-u55c7841a33/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk32-u55c7841a33/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk33-u55c7841a33/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk34-u55c7841a33/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk35-u55c7841a34/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk36-u55c7841a34/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk37-u55c7841a34/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk38-u55c7841a34/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk39-u55c7841a34/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk40-u55c7841a34/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk41-u55c7841a34/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk42-u55c7841a35/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk43-u55c7841a35/files/genome_output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ALIGN_READS/fork0/chnk44-u55c7841a36/files/genome_output.bam" ], "waiting": false }, { "id": "tags", "type": "fastq", "valexp": "SUMMARIZE_READ_REPORTS.tags", "mode": "reference", "output": "tags", "sweep": false, "sweepRootId": "tags", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk00-u55c78419ac/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk01-u55c78419ac/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk02-u55c78419ac/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk03-u55c78419ac/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk04-u55c78419ac/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk05-u55c78419ac/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk06-u55c78419ac/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk07-u55c78419ac/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk08-u55c78419ac/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk09-u55c78419ad/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk10-u55c78419ad/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk11-u55c78419ad/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk12-u55c78419ad/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk13-u55c78419ad/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk14-u55c78419ad/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk15-u55c78419ad/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk16-u55c78419ad/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk17-u55c78419ad/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk18-u55c78419ad/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk19-u55c78419ad/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk20-u55c78419ad/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk21-u55c78419ad/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk22-u55c78419ad/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk23-u55c78419ad/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk24-u55c78419ad/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk25-u55c78419ad/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk26-u55c78419ae/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk27-u55c78419ae/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk28-u55c78419ae/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk29-u55c78419ae/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk30-u55c78419ae/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk31-u55c78419ae/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk32-u55c78419ae/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk33-u55c78419ae/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk34-u55c78419ae/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk35-u55c78419ae/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk36-u55c78419ae/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk37-u55c78419ae/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk38-u55c78419ae/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk39-u55c78419ae/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk40-u55c78419af/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk41-u55c78419af/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk42-u55c78419af/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk43-u55c78419af/files/tags.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk44-u55c78419af/files/tags.fastq.lz4" ], "waiting": false }, { "id": "chemistry_def", "type": "map", "valexp": "self.chemistry_def", "mode": "reference", "output": "chemistry_def", "sweep": false, "sweepRootId": "chemistry_def", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "waiting": false }, { "id": "annotation_params", "type": "map", "valexp": "self.annotation_params", "mode": "value", "output": "", "sweep": false, "sweepRootId": "annotation_params", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "umi_min_qual_threshold", "type": "int", "valexp": "self.umi_min_qual_threshold", "mode": "value", "output": "", "sweep": false, "sweepRootId": "umi_min_qual_threshold", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": 10, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHECK_BARCODES_COMPATIBILITY", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ALIGN_READS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/counter/attach_bcs_and_umis" }, { "name": "BUCKET_BY_BC", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.BUCKET_BY_BC", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk00-u55c78424c0/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 1, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk01-u55c78424c1/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 2, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk02-u55c78424c1/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 3, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk03-u55c78424c1/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 4, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk04-u55c78424c1/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 5, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk05-u55c78424c1/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 6, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk06-u55c78424c1/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 7, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk07-u55c78424c1/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 8, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk08-u55c78424c1/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 9, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk09-u55c78424c1/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 10, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk10-u55c78424c1/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 11, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk11-u55c78424c1/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 12, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk12-u55c78424c1/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 13, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk13-u55c78424c1/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 14, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk14-u55c78424c1/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 15, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk15-u55c78424c2/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 16, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk16-u55c78424c2/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 17, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk17-u55c78424c2/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 18, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk18-u55c78424c2/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 19, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk19-u55c78424c2/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 20, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk20-u55c78424c2/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 21, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk21-u55c78424c2/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 22, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk22-u55c78424c2/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 23, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk23-u55c78424c2/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 24, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk24-u55c78424c2/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 25, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk25-u55c78424c2/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 26, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk26-u55c78424c2/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 27, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk27-u55c78424c2/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 28, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk28-u55c78424c4/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 29, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk29-u55c78424c4/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 30, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk30-u55c78424c4/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 31, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk31-u55c78424c4/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 32, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk32-u55c78424c4/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 33, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk33-u55c78424c4/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 34, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk34-u55c78424c5/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 35, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk35-u55c78424c5/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 36, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk36-u55c78424c5/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 37, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk37-u55c78424c5/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 38, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk38-u55c78424c5/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 39, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk39-u55c78424c5/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 40, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk40-u55c78424c5/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 41, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk41-u55c78424c5/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 42, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk42-u55c78424c5/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 43, "chunkDef": { "__mem_gb": 8, "__threads": 2, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk43-u55c78424c5/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 44, "chunkDef": { "__mem_gb": 4, "__threads": 2, "__vmem_gb": 7, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk44-u55c78424c5/files/output.bam", "read_groups": [ { "PU": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "LB": "0.1", "ID": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "PL": "ILLUMINA", "SM": "10X_G171C_pcgonly_UseThis" } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "nbases", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "nbases", "node": "BUCKET_BY_BC", "matchedFork": 0, "value": 2, "waiting": false }, { "id": "inputs", "type": "bam", "valexp": "ATTACH_BCS_AND_UMIS.output", "mode": "reference", "output": "output", "sweep": false, "sweepRootId": "inputs", "node": "ATTACH_BCS_AND_UMIS", "matchedFork": 0, "value": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk00-u55c78424c0/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk01-u55c78424c1/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk02-u55c78424c1/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk03-u55c78424c1/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk04-u55c78424c1/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk05-u55c78424c1/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk06-u55c78424c1/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk07-u55c78424c1/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk08-u55c78424c1/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk09-u55c78424c1/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk10-u55c78424c1/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk11-u55c78424c1/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk12-u55c78424c1/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk13-u55c78424c1/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk14-u55c78424c1/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk15-u55c78424c2/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk16-u55c78424c2/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk17-u55c78424c2/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk18-u55c78424c2/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk19-u55c78424c2/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk20-u55c78424c2/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk21-u55c78424c2/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk22-u55c78424c2/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk23-u55c78424c2/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk24-u55c78424c2/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk25-u55c78424c2/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk26-u55c78424c2/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk27-u55c78424c2/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk28-u55c78424c4/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk29-u55c78424c4/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk30-u55c78424c4/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk31-u55c78424c4/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk32-u55c78424c4/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk33-u55c78424c4/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk34-u55c78424c5/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk35-u55c78424c5/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk36-u55c78424c5/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk37-u55c78424c5/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk38-u55c78424c5/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk39-u55c78424c5/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk40-u55c78424c5/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk41-u55c78424c5/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk42-u55c78424c5/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk43-u55c78424c5/files/output.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/chnk44-u55c78424c5/files/output.bam" ], "waiting": false }, { "id": "num_alignments", "type": "int", "valexp": "ATTACH_BCS_AND_UMIS.num_alignments", "mode": "reference", "output": "num_alignments", "sweep": false, "sweepRootId": "num_alignments", "node": "ATTACH_BCS_AND_UMIS", "matchedFork": 0, "value": [ 5362247, 5366215, 5361261, 5363130, 5362274, 5356369, 5360043, 5363588, 5364234, 5366219, 5360146, 5362022, 5362349, 5363269, 5361348, 5361375, 5356883, 5358063, 5363062, 5362298, 5363289, 5369835, 5362715, 5358152, 5365191, 5363168, 5361713, 5362827, 5362399, 5353405, 5362026, 5363450, 5364311, 5367461, 5366635, 5357996, 5364857, 5363276, 5363149, 5357353, 5360898, 5362785, 5364033, 5366256, 2421520 ], "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.BUCKET_BY_BC" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/counter/bucket_reads_by_bc" }, { "name": "CHUNK_READS", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 1, "__threads": 4, "__vmem_gb": 4, "read_chunk": { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX/G171C_S2_L007_I1_001.fastq.gz", "I2": null, "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX/G171C_S2_L007_R1_001.fastq.gz", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX/G171C_S2_L007_R2_001.fastq.gz" }, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "reads_interleaved": false } }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "reads_per_file", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "reads_per_file", "node": "CHUNK_READS", "matchedFork": 0, "value": 5000000, "waiting": false }, { "id": "chunks", "type": "map", "valexp": "self.chunks", "mode": "reference", "output": "chunks", "sweep": false, "sweepRootId": "chunks", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": [ { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX/G171C_S2_L007_I1_001.fastq.gz", "I2": null, "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX/G171C_S2_L007_R1_001.fastq.gz", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/H3LTJBBXX/10X_G171C_MissingLibrary_1_H3LTJBBXX/G171C_S2_L007_R2_001.fastq.gz" }, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "reads_interleaved": false } ], "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/common/chunk_reads" }, { "name": "COUNT_GENES", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.COUNT_GENES", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 12, "__vmem_gb": 15 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk00-u55c78434a4/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk00", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 1, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk01-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk01", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 2, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk02-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk02", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 3, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk03-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk03", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 4, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk04-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk04", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 5, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk05-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk05", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 6, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk06-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk06", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 7, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk07-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk07", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 8, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk08-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk08", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 9, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk09-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk09", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 10, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk10-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk10", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 11, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk11-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk11", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 12, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk12-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk12", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 13, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk13-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk13", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 14, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk14-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk14", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 15, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk15-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk15", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 16, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk16-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk16", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 17, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk17-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk17", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 18, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk18-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk18", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 19, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk19-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk19", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 20, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk20-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk20", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 21, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk21-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk21", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 22, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk22-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk22", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 23, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk23-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk23", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 24, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk24-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk24", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 25, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk25-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk25", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 26, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk26-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk26", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 27, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk27-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk27", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 28, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk28-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk28", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 29, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk29-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk29", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 30, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk30-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk30", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 31, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk31-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk31", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 32, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk32-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk32", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 33, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk33-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk33", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 34, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk34-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk34", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 35, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk35-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk35", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 36, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk36-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk36", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 37, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk37-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk37", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 38, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk38-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk38", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 39, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk39-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk39", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 40, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk40-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk40", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 41, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk41-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk41", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 42, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk42-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk42", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 43, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk43-u55c78434a8/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk43", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 44, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk44-u55c78434a8/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk44", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 45, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk45-u55c78434a8/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk45", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 46, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk46-u55c78434a8/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk46", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 47, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk47-u55c78434a8/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/chnk47", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "feature_reference", "type": "csv", "valexp": "self.feature_reference", "mode": "value", "output": "", "sweep": false, "sweepRootId": "feature_reference", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "barcode_whitelist", "type": "string", "valexp": "self.barcode_whitelist", "mode": "reference", "output": "barcode_whitelist", "sweep": false, "sweepRootId": "barcode_whitelist", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": "3M-february-2018", "waiting": false }, { "id": "is_antibody_only", "type": "bool", "valexp": "self.is_antibody_only", "mode": "reference", "output": "is_antibody_only", "sweep": false, "sweepRootId": "is_antibody_only", "node": "DETECT_CHEMISTRY", "matchedFork": 0, "value": false, "waiting": false }, { "id": "gem_groups", "type": "int", "valexp": "SUMMARIZE_READ_REPORTS.gem_groups", "mode": "reference", "output": "gem_groups", "sweep": false, "sweepRootId": "gem_groups", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": [ 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1 ], "waiting": false }, { "id": "align", "type": "map", "valexp": "SUMMARIZE_READ_REPORTS.align", "mode": "reference", "output": "align", "sweep": false, "sweepRootId": "align", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": { "aligner": "star", "high_conf_mapq": 255 }, "waiting": false }, { "id": "chemistry_def", "type": "map", "valexp": "self.chemistry_def", "mode": "reference", "output": "chemistry_def", "sweep": false, "sweepRootId": "chemistry_def", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "waiting": false }, { "id": "barcodes_detected", "type": "csv", "valexp": "ATTACH_BCS_AND_UMIS.barcodes_detected", "mode": "reference", "output": "barcodes_detected", "sweep": false, "sweepRootId": "barcodes_detected", "node": "ATTACH_BCS_AND_UMIS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/join-u55c78424bd/files/barcodes_detected.csv", "waiting": false }, { "id": "sample_id", "type": "string", "valexp": "self.sample_id", "mode": "value", "output": "", "sweep": false, "sweepRootId": "sample_id", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "10X_G171C_pcgonly_UseThis", "waiting": false }, { "id": "inputs", "type": "bam", "valexp": "MARK_DUPLICATES.output", "mode": "reference", "output": "output", "sweep": false, "sweepRootId": "inputs", "node": "MARK_DUPLICATES", "matchedFork": 0, "value": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk00-u55c78434a4/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk01-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk02-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk03-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk04-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk05-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk06-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk07-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk08-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk09-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk10-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk11-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk12-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk13-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk14-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk15-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk16-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk17-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk18-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk19-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk20-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk21-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk22-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk23-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk24-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk25-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk26-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk27-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk28-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk29-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk30-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk31-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk32-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk33-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk34-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk35-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk36-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk37-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk38-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk39-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk40-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk41-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk42-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk43-u55c78434a8/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk44-u55c78434a8/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk45-u55c78434a8/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk46-u55c78434a8/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk47-u55c78434a8/files/alignments.bam" ], "waiting": false }, { "id": "reference_path", "type": "path", "valexp": "self.reference_path", "mode": "value", "output": "", "sweep": false, "sweepRootId": "reference_path", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/mm10_premrna_v1.0_pcg-only", "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.COUNT_GENES" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.COUNT_GENES" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.COUNT_GENES" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.COUNT_GENES" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.MARK_DUPLICATES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.COUNT_GENES" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/counter/count_genes" }, { "name": "EXTRACT_READS", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 8, "__vmem_gb": 11 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0000.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0000.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0000.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk00", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 1, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0001.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0001.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0001.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk01", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 2, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0002.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0002.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0002.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk02", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 3, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0003.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0003.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0003.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk03", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 4, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0004.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0004.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0004.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk04", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 5, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0005.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0005.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0005.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk05", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 6, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0006.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0006.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0006.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk06", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 7, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0007.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0007.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0007.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk07", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 8, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0008.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0008.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0008.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk08", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 9, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0009.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0009.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0009.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk09", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 10, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0010.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0010.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0010.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk10", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 11, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0011.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0011.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0011.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk11", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 12, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0012.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0012.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0012.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk12", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 13, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0013.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0013.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0013.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk13", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 14, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0014.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0014.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0014.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk14", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 15, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0015.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0015.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0015.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk15", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 16, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0016.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0016.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0016.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk16", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 17, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0017.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0017.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0017.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk17", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 18, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0018.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0018.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0018.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk18", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 19, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0019.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0019.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0019.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk19", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 20, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0020.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0020.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0020.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk20", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 21, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0021.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0021.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0021.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk21", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 22, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0022.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0022.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0022.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk22", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 23, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0023.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0023.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0023.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk23", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 24, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0024.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0024.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0024.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk24", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 25, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0025.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0025.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0025.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk25", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 26, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0026.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0026.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0026.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk26", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 27, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0027.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0027.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0027.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk27", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 28, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0028.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0028.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0028.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk28", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 29, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0029.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0029.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0029.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk29", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 30, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0030.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0030.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0030.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk30", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 31, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0031.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0031.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0031.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk31", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 32, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0032.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0032.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0032.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk32", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 33, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0033.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0033.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0033.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk33", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 34, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0034.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0034.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0034.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk34", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 35, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0035.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0035.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0035.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk35", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 36, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0036.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0036.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0036.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk36", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 37, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0037.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0037.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0037.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk37", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 38, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0038.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0038.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0038.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk38", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 39, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0039.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0039.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0039.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk39", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 40, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0040.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0040.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0040.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk40", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 41, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0041.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0041.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0041.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk41", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 42, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0042.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0042.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0042.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk42", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 43, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0043.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0043.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0043.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk43", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 44, "chunkDef": { "__mem_gb": 6, "__threads": 1, "__vmem_gb": 9, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "chunk_initial_reads": null, "chunk_subsample_rate": 1.0, "gem_group": 1, "library_id": "0", "library_type": "Gene Expression", "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0044.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0044.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0044.fastq.lz4" }, "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "reads_interleaved": false }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk44", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "chemistry_def", "type": "map", "valexp": "self.chemistry_def", "mode": "reference", "output": "chemistry_def", "sweep": false, "sweepRootId": "chemistry_def", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "waiting": false }, { "id": "align", "type": "map", "valexp": "self.align", "mode": "value", "output": "", "sweep": false, "sweepRootId": "align", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": { "aligner": "star", "high_conf_mapq": null }, "waiting": false }, { "id": "initial_reads", "type": "int", "valexp": "self.initial_reads", "mode": "value", "output": "", "sweep": false, "sweepRootId": "initial_reads", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "primers", "type": "map", "valexp": "self.primers", "mode": "value", "output": "", "sweep": false, "sweepRootId": "primers", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": [ { "name": "P5", "seq": "AATGATACGGCGACCACCGAGATCT" }, { "name": "P7", "seq": "CAAGCAGAAGACGGCATACGAGAT" }, { "name": "R1", "seq": "ACACTCTTTCCCTACACGACG" }, { "name": "R2", "seq": "GTGACTGGAGTTCAGACGTGTG" }, { "name": "switch_oligo", "seq": "AAGCAGTGGTATCAACGCAGAGTACATGGG" }, { "name": "polyA", "seq": "AAAAAAAAAAAAAAAAAAAA" } ], "waiting": false }, { "id": "r2_length", "type": "int", "valexp": "self.r2_length", "mode": "value", "output": "", "sweep": false, "sweepRootId": "r2_length", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "reference_path", "type": "path", "valexp": "self.reference_path", "mode": "value", "output": "", "sweep": false, "sweepRootId": "reference_path", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/mm10_premrna_v1.0_pcg-only", "waiting": false }, { "id": "reads_per_file", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "reads_per_file", "node": "EXTRACT_READS", "matchedFork": 0, "value": 5000000, "waiting": false }, { "id": "subsample_rate", "type": "float", "valexp": "self.subsample_rate", "mode": "value", "output": "", "sweep": false, "sweepRootId": "subsample_rate", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": 1, "waiting": false }, { "id": "augment_fastq", "type": "bool", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "augment_fastq", "node": "EXTRACT_READS", "matchedFork": 0, "value": false, "waiting": false }, { "id": "skip_metrics", "type": "bool", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "skip_metrics", "node": "EXTRACT_READS", "matchedFork": 0, "value": false, "waiting": false }, { "id": "feature_reference", "type": "csv", "valexp": "self.feature_reference", "mode": "value", "output": "", "sweep": false, "sweepRootId": "feature_reference", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "r1_length", "type": "int", "valexp": "self.r1_length", "mode": "value", "output": "", "sweep": false, "sweepRootId": "r1_length", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "library_info", "type": "map", "valexp": "self.library_info", "mode": "reference", "output": "library_info", "sweep": false, "sweepRootId": "library_info", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": [ { "gem_group": 1, "library_id": "0", "library_type": "Gene Expression" } ], "waiting": false }, { "id": "chunks", "type": "map", "valexp": "CHUNK_READS.out_chunks", "mode": "reference", "output": "out_chunks", "sweep": false, "sweepRootId": "chunks", "node": "CHUNK_READS", "matchedFork": 0, "value": [ { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0000.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0000.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0000.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0001.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0001.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0001.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0002.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0002.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0002.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0003.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0003.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0003.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0004.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0004.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0004.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0005.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0005.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0005.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0006.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0006.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0006.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0007.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0007.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0007.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0008.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0008.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0008.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0009.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0009.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0009.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0010.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0010.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0010.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0011.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0011.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0011.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0012.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0012.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0012.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0013.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0013.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0013.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0014.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0014.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0014.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0015.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0015.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0015.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0016.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0016.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0016.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0017.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0017.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0017.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0018.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0018.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0018.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0019.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0019.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0019.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0020.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0020.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0020.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0021.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0021.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0021.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0022.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0022.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0022.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0023.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0023.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0023.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0024.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0024.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0024.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0025.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0025.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0025.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0026.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0026.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0026.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0027.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0027.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0027.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0028.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0028.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0028.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0029.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0029.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0029.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0030.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0030.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0030.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0031.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0031.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0031.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0032.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0032.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0032.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0033.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0033.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0033.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0034.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0034.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0034.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0035.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0035.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0035.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0036.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0036.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0036.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0037.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0037.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0037.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0038.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0038.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0038.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0039.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0039.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0039.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0040.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0040.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0040.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0041.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0041.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0041.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0042.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0042.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0042.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0043.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0043.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0043.fastq.lz4" } }, { "gem_group": 1, "library_type": "Gene Expression", "read_group": "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "subsample_rate": 1.0, "library_id": "0", "reads_interleaved": false, "chemistry": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "read_chunks": { "I1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/I1-0044.fastq.lz4", "R1": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R1-0044.fastq.lz4", "R2": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/CHUNK_READS/fork0/chnk0-u55c7840ed6/files/R2-0044.fastq.lz4" } } ], "waiting": false }, { "id": "barcode_whitelist", "type": "string", "valexp": "self.barcode_whitelist", "mode": "reference", "output": "barcode_whitelist", "sweep": false, "sweepRootId": "barcode_whitelist", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": "3M-february-2018", "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/common/extract_reads" }, { "name": "FILTER_BARCODES", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.FILTER_BARCODES", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 16, "__vmem_gb": 19 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [], "bindings": { "Argument": [ { "id": "raw_fastq_summary", "type": "json", "valexp": "SUMMARIZE_READ_REPORTS.summary", "mode": "reference", "output": "summary", "sweep": false, "sweepRootId": "raw_fastq_summary", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/join-u55c78419a9/files/summary.json", "waiting": false }, { "id": "attach_bcs_summary", "type": "json", "valexp": "ATTACH_BCS_AND_UMIS.summary", "mode": "reference", "output": "summary", "sweep": false, "sweepRootId": "attach_bcs_summary", "node": "ATTACH_BCS_AND_UMIS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/join-u55c78424bd/files/summary.json", "waiting": false }, { "id": "barcode_whitelist", "type": "string", "valexp": "self.barcode_whitelist", "mode": "reference", "output": "barcode_whitelist", "sweep": false, "sweepRootId": "barcode_whitelist", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": "3M-february-2018", "waiting": false }, { "id": "gem_groups", "type": "int", "valexp": "SUMMARIZE_READ_REPORTS.gem_groups", "mode": "reference", "output": "gem_groups", "sweep": false, "sweepRootId": "gem_groups", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": [ 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1 ], "waiting": false }, { "id": "chemistry_def", "type": "map", "valexp": "self.chemistry_def", "mode": "reference", "output": "chemistry_def", "sweep": false, "sweepRootId": "chemistry_def", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "waiting": false }, { "id": "sample_id", "type": "string", "valexp": "self.sample_id", "mode": "value", "output": "", "sweep": false, "sweepRootId": "sample_id", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "10X_G171C_pcgonly_UseThis", "waiting": false }, { "id": "barcode_correction_csv", "type": "csv", "valexp": "MARK_DUPLICATES.barcode_summary", "mode": "reference", "output": "barcode_summary", "sweep": false, "sweepRootId": "barcode_correction_csv", "node": "MARK_DUPLICATES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/join-u55c784348a/files/barcode_summary.csv", "waiting": false }, { "id": "cell_barcodes", "type": "json", "valexp": "self.cell_barcodes", "mode": "value", "output": "", "sweep": false, "sweepRootId": "cell_barcodes", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": null, "waiting": false }, { "id": "matrices_h5", "type": "h5", "valexp": "COUNT_GENES.matrices_h5", "mode": "reference", "output": "matrices_h5", "sweep": false, "sweepRootId": "matrices_h5", "node": "COUNT_GENES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/join-u55c78435e4/files/matrices_h5.h5", "waiting": false }, { "id": "barcode_summary", "type": "h5", "valexp": "COUNT_GENES.barcode_summary", "mode": "reference", "output": "barcode_summary", "sweep": false, "sweepRootId": "barcode_summary", "node": "COUNT_GENES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/join-u55c78435e4/files/barcode_summary.h5", "waiting": false }, { "id": "recovered_cells", "type": "int", "valexp": "self.recovered_cells", "mode": "value", "output": "", "sweep": false, "sweepRootId": "recovered_cells", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": 5000, "waiting": false }, { "id": "force_cells", "type": "int", "valexp": "self.force_cells", "mode": "value", "output": "", "sweep": false, "sweepRootId": "force_cells", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "is_antibody_only", "type": "bool", "valexp": "self.is_antibody_only", "mode": "reference", "output": "is_antibody_only", "sweep": false, "sweepRootId": "is_antibody_only", "node": "DETECT_CHEMISTRY", "matchedFork": 0, "value": false, "waiting": false }, { "id": "reference_path", "type": "path", "valexp": "self.reference_path", "mode": "value", "output": "", "sweep": false, "sweepRootId": "reference_path", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/mm10_premrna_v1.0_pcg-only", "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.FILTER_BARCODES" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.FILTER_BARCODES" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.FILTER_BARCODES" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.MARK_DUPLICATES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.FILTER_BARCODES" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.COUNT_GENES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.FILTER_BARCODES" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.FILTER_BARCODES" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/counter/filter_barcodes" }, { "name": "MARK_DUPLICATES", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.MARK_DUPLICATES", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 4, "__vmem_gb": 7 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 14, "__threads": 1, "__vmem_gb": 17, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 35516040216576, "chunk_size_gb": 5.889417509835465, "chunk_start": 167641088, "major_barcode_proportion": 1.0 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk00", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 1, "chunkDef": { "__mem_gb": 10, "__threads": 1, "__vmem_gb": 13, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 70936023529561, "chunk_size_gb": 5.873562637352405, "chunk_start": 35516040216576, "major_barcode_proportion": 0.21481481481481482 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk01", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 2, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 103193510100296, "chunk_size_gb": 5.349099715961549, "chunk_start": 70936023529561, "major_barcode_proportion": 0.09153543307086615 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk02", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 3, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 137135928508951, "chunk_size_gb": 5.628507357342799, "chunk_start": 103193510100296, "major_barcode_proportion": 0.05986261040235525 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk03", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 4, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 168535589482237, "chunk_size_gb": 5.206844823476963, "chunk_start": 137135928508951, "major_barcode_proportion": 0.08531746031746032 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk04", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 5, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 200590864633668, "chunk_size_gb": 5.315571120246909, "chunk_start": 168535589482237, "major_barcode_proportion": 0.040877367896311065 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk05", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 6, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 233127290110873, "chunk_size_gb": 5.395358788899909, "chunk_start": 200590864633668, "major_barcode_proportion": 0.03831041257367387 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk06", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 7, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 265616280038885, "chunk_size_gb": 5.387506981429301, "chunk_start": 233127290110873, "major_barcode_proportion": 0.03536345776031434 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk07", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 8, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 298575469865228, "chunk_size_gb": 5.465468202766619, "chunk_start": 265616280038885, "major_barcode_proportion": 0.08242303872889771 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk08", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 9, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 331051046829291, "chunk_size_gb": 5.385261516597934, "chunk_start": 298575469865228, "major_barcode_proportion": 0.020874751491053677 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk09", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 10, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 363791700081253, "chunk_size_gb": 5.429221503156469, "chunk_start": 331051046829291, "major_barcode_proportion": 0.029469548133595286 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk10", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 11, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 396336965056542, "chunk_size_gb": 5.396817699298823, "chunk_start": 363791700081253, "major_barcode_proportion": 0.0412573673870334 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk11", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 12, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 428939894620596, "chunk_size_gb": 5.40638997164884, "chunk_start": 396336965056542, "major_barcode_proportion": 0.04616895874263261 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk12", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 13, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 461385182888141, "chunk_size_gb": 5.380261301770246, "chunk_start": 428939894620596, "major_barcode_proportion": 0.05506391347099312 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk13", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 14, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 493954360194515, "chunk_size_gb": 5.4007818466962725, "chunk_start": 461385182888141, "major_barcode_proportion": 0.03929273084479371 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk14", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 15, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 526587259132075, "chunk_size_gb": 5.4113595828526, "chunk_start": 493954360194515, "major_barcode_proportion": 0.07760314341846758 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk15", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 16, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 559256898635557, "chunk_size_gb": 5.417450899468329, "chunk_start": 526587259132075, "major_barcode_proportion": 0.03831041257367387 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk16", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 17, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 592274021321052, "chunk_size_gb": 5.475079381712397, "chunk_start": 559256898635557, "major_barcode_proportion": 0.07292707292707293 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk17", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 18, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 625529821107347, "chunk_size_gb": 5.514642357826233, "chunk_start": 592274021321052, "major_barcode_proportion": 0.029940119760479042 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk18", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 19, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 658000448779552, "chunk_size_gb": 5.384452965810783, "chunk_start": 625529821107347, "major_barcode_proportion": 0.07064676616915423 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk19", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 20, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 690889401913477, "chunk_size_gb": 5.4538156773362845, "chunk_start": 658000448779552, "major_barcode_proportion": 0.04911591355599214 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk20", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 21, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 723785690752088, "chunk_size_gb": 5.455036583699678, "chunk_start": 690889401913477, "major_barcode_proportion": 0.08129285014691479 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk21", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 22, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 756461859026854, "chunk_size_gb": 5.418534350350387, "chunk_start": 723785690752088, "major_barcode_proportion": 0.05226824457593689 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk22", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 23, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 789092309944420, "chunk_size_gb": 5.410943695253, "chunk_start": 756461859026854, "major_barcode_proportion": 0.08447937131630648 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk23", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 24, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 821505044966180, "chunk_size_gb": 5.374837146329701, "chunk_start": 789092309944420, "major_barcode_proportion": 0.0618860510805501 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk24", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 25, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 853986405327481, "chunk_size_gb": 5.386230758146236, "chunk_start": 821505044966180, "major_barcode_proportion": 0.03721841332027424 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk25", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 26, "chunkDef": { "__mem_gb": 10, "__threads": 1, "__vmem_gb": 13, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 886699895857744, "chunk_size_gb": 5.424721651059344, "chunk_start": 853986405327481, "major_barcode_proportion": 0.13260219341974078 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk26", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 27, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 919041539787028, "chunk_size_gb": 5.363056957273555, "chunk_start": 886699895857744, "major_barcode_proportion": 0.038728897715988087 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk27", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 28, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 951641808983876, "chunk_size_gb": 5.4059420893514964, "chunk_start": 919041539787028, "major_barcode_proportion": 0.05304518664047151 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk28", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 29, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 984238378958164, "chunk_size_gb": 5.405323843982883, "chunk_start": 951641808983876, "major_barcode_proportion": 0.060903732809430254 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk29", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 30, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 1016880729897191, "chunk_size_gb": 5.412953405676031, "chunk_start": 984238378958164, "major_barcode_proportion": 0.043222003929273084 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk30", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 31, "chunkDef": { "__mem_gb": 10, "__threads": 1, "__vmem_gb": 13, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 1049491116239134, "chunk_size_gb": 5.407631918003685, "chunk_start": 1016880729897191, "major_barcode_proportion": 0.12278978388998035 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk31", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 32, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 1082489501135111, "chunk_size_gb": 5.4719749831391455, "chunk_start": 1049491116239134, "major_barcode_proportion": 0.05108055009823183 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk32", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 33, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 1115178236193275, "chunk_size_gb": 5.420631959250099, "chunk_start": 1082489501135111, "major_barcode_proportion": 0.036345776031434185 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk33", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 34, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 1147738678017329, "chunk_size_gb": 5.39935383335092, "chunk_start": 1115178236193275, "major_barcode_proportion": 0.08546168958742632 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk34", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 35, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 1180264738770333, "chunk_size_gb": 5.3936482354214315, "chunk_start": 1147738678017329, "major_barcode_proportion": 0.02654867256637168 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk35", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 36, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 1212992730679201, "chunk_size_gb": 5.427120775208437, "chunk_start": 1180264738770333, "major_barcode_proportion": 0.0273972602739726 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk36", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 37, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 1245331478018370, "chunk_size_gb": 5.362576721642251, "chunk_start": 1212992730679201, "major_barcode_proportion": 0.08086785009861933 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk37", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 38, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 1278111607414055, "chunk_size_gb": 5.43576527739826, "chunk_start": 1245331478018370, "major_barcode_proportion": 0.034280117531831536 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk38", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 39, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 1310896628181217, "chunk_size_gb": 5.436584261239023, "chunk_start": 1278111607414055, "major_barcode_proportion": 0.03736479842674533 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk39", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 40, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 1343525230683909, "chunk_size_gb": 5.410641125830493, "chunk_start": 1310896628181217, "major_barcode_proportion": 0.0344488188976378 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk40", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 41, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 1375937191791372, "chunk_size_gb": 5.374708167704425, "chunk_start": 1343525230683909, "major_barcode_proportion": 0.05014749262536873 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk41", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 42, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 1409035931590304, "chunk_size_gb": 5.488612128155572, "chunk_start": 1375937191791372, "major_barcode_proportion": 0.02766798418972332 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk42", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 43, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 1441139527138302, "chunk_size_gb": 5.323603712974634, "chunk_start": 1409035931590304, "major_barcode_proportion": 0.03896103896103896 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk43", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 44, "chunkDef": { "__mem_gb": 10, "__threads": 1, "__vmem_gb": 13, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 1473721675755783, "chunk_size_gb": 5.402942901603261, "chunk_start": 1441139527138302, "major_barcode_proportion": 0.14636542239685657 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk44", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 45, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 1506611315203312, "chunk_size_gb": 5.453930245306259, "chunk_start": 1473721675755783, "major_barcode_proportion": 0.054945054945054944 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk45", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 46, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "bam_compression_ratio": 0.0856958762886598, "chunk_end": 1539210722030988, "chunk_size_gb": 5.405804036143131, "chunk_start": 1506611315203312, "major_barcode_proportion": 0.04743083003952569 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk46", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 47, "chunkDef": { "__mem_gb": 4, "__threads": 1, "__vmem_gb": 7, "bam_compression_ratio": 0.0856958762886598, "chunk_end": null, "chunk_size_gb": 0.0037472594277303023, "chunk_start": 1539210722030988, "major_barcode_proportion": 0.4838709677419355 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk47", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "input", "type": "bam", "valexp": "SORT_BY_BC", "mode": "reference", "output": "default", "sweep": false, "sweepRootId": "input", "node": "SORT_BY_BC", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/join-u55c784315f/files/default.bam", "waiting": false }, { "id": "reference_path", "type": "path", "valexp": "self.reference_path", "mode": "value", "output": "", "sweep": false, "sweepRootId": "reference_path", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/mm10_premrna_v1.0_pcg-only", "waiting": false }, { "id": "filter_umis", "type": "bool", "valexp": "self.filter_umis", "mode": "value", "output": "", "sweep": false, "sweepRootId": "filter_umis", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": true, "waiting": false }, { "id": "library_info", "type": "map", "valexp": "self.library_info", "mode": "reference", "output": "library_info", "sweep": false, "sweepRootId": "library_info", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": [ { "gem_group": 1, "library_id": "0", "library_type": "Gene Expression" } ], "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_BC", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.MARK_DUPLICATES" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.MARK_DUPLICATES" } ], "stagecodeLang": "Compiled", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/lib/bin/cr_stage martian mark_duplicates" }, { "name": "REPORT_MOLECULES", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 29, "__vmem_gb": 32 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk00-u55c78434a4/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk00", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 1, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk01-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk01", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 2, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk02-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk02", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 3, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk03-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk03", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 4, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk04-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk04", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 5, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk05-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk05", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 6, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk06-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk06", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 7, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk07-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk07", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 8, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk08-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk08", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 9, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk09-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk09", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 10, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk10-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk10", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 11, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk11-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk11", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 12, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk12-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk12", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 13, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk13-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk13", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 14, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk14-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk14", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 15, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk15-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk15", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 16, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk16-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk16", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 17, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk17-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk17", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 18, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk18-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk18", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 19, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk19-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk19", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 20, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk20-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk20", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 21, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk21-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk21", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 22, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk22-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk22", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 23, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk23-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk23", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 24, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk24-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk24", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 25, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk25-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk25", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 26, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk26-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk26", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 27, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk27-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk27", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 28, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk28-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk28", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 29, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk29-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk29", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 30, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk30-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk30", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 31, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk31-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk31", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 32, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk32-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk32", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 33, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk33-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk33", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 34, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk34-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk34", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 35, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk35-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk35", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 36, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk36-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk36", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 37, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk37-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk37", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 38, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk38-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk38", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 39, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk39-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk39", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 40, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk40-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk40", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 41, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk41-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk41", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 42, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk42-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk42", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 43, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk43-u55c78434a8/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk43", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 44, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk44-u55c78434a8/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk44", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 45, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk45-u55c78434a8/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk45", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 46, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk46-u55c78434a8/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk46", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 47, "chunkDef": { "__mem_gb": 8, "__threads": 1, "__vmem_gb": 11, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk47-u55c78434a8/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/chnk47", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "force_cells", "type": "int", "valexp": "self.force_cells", "mode": "value", "output": "", "sweep": false, "sweepRootId": "force_cells", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "filtered_barcodes", "type": "csv", "valexp": "FILTER_BARCODES.filtered_barcodes", "mode": "reference", "output": "filtered_barcodes", "sweep": false, "sweepRootId": "filtered_barcodes", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_barcodes.csv", "waiting": false }, { "id": "inputs", "type": "bam", "valexp": "MARK_DUPLICATES.output", "mode": "reference", "output": "output", "sweep": false, "sweepRootId": "inputs", "node": "MARK_DUPLICATES", "matchedFork": 0, "value": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk00-u55c78434a4/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk01-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk02-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk03-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk04-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk05-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk06-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk07-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk08-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk09-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk10-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk11-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk12-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk13-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk14-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk15-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk16-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk17-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk18-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk19-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk20-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk21-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk22-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk23-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk24-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk25-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk26-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk27-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk28-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk29-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk30-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk31-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk32-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk33-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk34-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk35-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk36-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk37-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk38-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk39-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk40-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk41-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk42-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk43-u55c78434a8/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk44-u55c78434a8/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk45-u55c78434a8/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk46-u55c78434a8/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk47-u55c78434a8/files/alignments.bam" ], "waiting": false }, { "id": "reference_path", "type": "path", "valexp": "self.reference_path", "mode": "value", "output": "", "sweep": false, "sweepRootId": "reference_path", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/mm10_premrna_v1.0_pcg-only", "waiting": false }, { "id": "align", "type": "map", "valexp": "SUMMARIZE_READ_REPORTS.align", "mode": "reference", "output": "align", "sweep": false, "sweepRootId": "align", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": { "aligner": "star", "high_conf_mapq": 255 }, "waiting": false }, { "id": "barcode_whitelist", "type": "string", "valexp": "self.barcode_whitelist", "mode": "reference", "output": "barcode_whitelist", "sweep": false, "sweepRootId": "barcode_whitelist", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": "3M-february-2018", "waiting": false }, { "id": "attach_bcs_and_umis_summary", "type": "json", "valexp": "ATTACH_BCS_AND_UMIS.summary", "mode": "reference", "output": "summary", "sweep": false, "sweepRootId": "attach_bcs_and_umis_summary", "node": "ATTACH_BCS_AND_UMIS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/join-u55c78424bd/files/summary.json", "waiting": false }, { "id": "recovered_cells", "type": "int", "valexp": "self.recovered_cells", "mode": "value", "output": "", "sweep": false, "sweepRootId": "recovered_cells", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": 5000, "waiting": false }, { "id": "feature_reference", "type": "csv", "valexp": "self.feature_reference", "mode": "value", "output": "", "sweep": false, "sweepRootId": "feature_reference", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "extract_reads_summary", "type": "json", "valexp": "SUMMARIZE_READ_REPORTS.summary", "mode": "reference", "output": "summary", "sweep": false, "sweepRootId": "extract_reads_summary", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/join-u55c78419a9/files/summary.json", "waiting": false }, { "id": "mark_duplicates_summary", "type": "json", "valexp": "MARK_DUPLICATES.summary", "mode": "reference", "output": "summary", "sweep": false, "sweepRootId": "mark_duplicates_summary", "node": "MARK_DUPLICATES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/join-u55c784348a/files/summary.json", "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.FILTER_BARCODES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.MARK_DUPLICATES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/counter/report_molecules" }, { "name": "SORT_BY_BC", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_BC", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "bucket": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-CG-1.bam" ], "prefix": "CG-1" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/chnk00", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 1, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "bucket": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-TG-1.bam" ], "prefix": "TG-1" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/chnk01", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 2, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "bucket": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-CT-1.bam" ], "prefix": "CT-1" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/chnk02", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 3, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "bucket": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-GG-1.bam" ], "prefix": "GG-1" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/chnk03", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 4, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "bucket": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-TC-1.bam" ], "prefix": "TC-1" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/chnk04", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 5, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "bucket": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-GA-1.bam" ], "prefix": "GA-1" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/chnk05", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 6, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "bucket": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-CA-1.bam" ], "prefix": "CA-1" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/chnk06", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 7, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "bucket": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-CC-1.bam" ], "prefix": "CC-1" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/chnk07", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 8, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "bucket": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-AT-1.bam" ], "prefix": "AT-1" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/chnk08", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 9, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "bucket": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-GT-1.bam" ], "prefix": "GT-1" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/chnk09", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 10, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "bucket": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-AC-1.bam" ], "prefix": "AC-1" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/chnk10", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 11, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "bucket": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-AA-1.bam" ], "prefix": "AA-1" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/chnk11", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 12, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "bucket": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-AG-1.bam" ], "prefix": "AG-1" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/chnk12", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 13, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "bucket": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-GC-1.bam" ], "prefix": "GC-1" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/chnk13", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 14, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "bucket": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-TA-1.bam" ], "prefix": "TA-1" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/chnk14", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 15, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "bucket": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-TT-1.bam" ], "prefix": "TT-1" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/chnk15", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 16, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "bucket": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-.bam" ], "prefix": "" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_BC/fork0/chnk16", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "buckets", "type": "map", "valexp": "BUCKET_BY_BC.buckets", "mode": "reference", "output": "buckets", "sweep": false, "sweepRootId": "buckets", "node": "BUCKET_BY_BC", "matchedFork": 0, "value": { "CG-1": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-CG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-CG-1.bam" ], "TG-1": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-TG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-TG-1.bam" ], "TA-1": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-TA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-TA-1.bam" ], "GG-1": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-GG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-GG-1.bam" ], "TC-1": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-TC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-TC-1.bam" ], "GA-1": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-GA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-GA-1.bam" ], "CA-1": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-CA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-CA-1.bam" ], "CC-1": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-CC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-CC-1.bam" ], "AT-1": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-AT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-AT-1.bam" ], "AC-1": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-AC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-AC-1.bam" ], "AA-1": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-AA-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-AA-1.bam" ], "AG-1": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-AG-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-AG-1.bam" ], "GC-1": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-GC-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-GC-1.bam" ], "CT-1": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-CT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-CT-1.bam" ], "": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-.bam" ], "TT-1": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-TT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-TT-1.bam" ], "GT-1": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk00-u55c7842e27/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk01-u55c7842e27/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk02-u55c7842e27/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk03-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk04-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk05-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk06-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk07-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk08-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk09-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk10-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk11-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk12-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk13-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk14-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk15-u55c7842e28/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk16-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk17-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk18-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk19-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk20-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk21-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk22-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk23-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk24-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk25-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk26-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk27-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk28-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk29-u55c7842e29/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk30-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk31-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk32-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk33-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk34-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk35-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk36-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk37-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk38-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk39-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk40-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk41-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk42-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk43-u55c7842e2a/files/bc-GT-1.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/BUCKET_BY_BC/fork0/chnk44-u55c7842e2b/files/bc-GT-1.bam" ] }, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.BUCKET_BY_BC", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_BC" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/counter/sort_reads_by_bc" }, { "name": "SORT_BY_POS", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 6, "__mem_gb": 4, "__vmem_gb": 7 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk00-u55c78434a4/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk00", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 1, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk01-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk01", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 2, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk02-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk02", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 3, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk03-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk03", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 4, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk04-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk04", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 5, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk05-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk05", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 6, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk06-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk06", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 7, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk07-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk07", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 8, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk08-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk08", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 9, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk09-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk09", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 10, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk10-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk10", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 11, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk11-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk11", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 12, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk12-u55c78434a5/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk12", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 13, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk13-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk13", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 14, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk14-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk14", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 15, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk15-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk15", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 16, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk16-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk16", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 17, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk17-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk17", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 18, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk18-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk18", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 19, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk19-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk19", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 20, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk20-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk20", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 21, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk21-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk21", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 22, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk22-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk22", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 23, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk23-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk23", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 24, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk24-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk24", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 25, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk25-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk25", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 26, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk26-u55c78434a6/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk26", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 27, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk27-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk27", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 28, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk28-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk28", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 29, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk29-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk29", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 30, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk30-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk30", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 31, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk31-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk31", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 32, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk32-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk32", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 33, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk33-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk33", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 34, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk34-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk34", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 35, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk35-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk35", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 36, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk36-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk36", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 37, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk37-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk37", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 38, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk38-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk38", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 39, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk39-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk39", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 40, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk40-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk40", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 41, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk41-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk41", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 42, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk42-u55c78434a7/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk42", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 43, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk43-u55c78434a8/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk43", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 44, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk44-u55c78434a8/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk44", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 45, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk45-u55c78434a8/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk45", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 46, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk46-u55c78434a8/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk46", "names": [ "args", "complete", "heartbeat", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 47, "chunkDef": { "__mem_gb": 2, "__threads": 1, "__vmem_gb": 5, "chunk_input": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk47-u55c78434a8/files/alignments.bam" }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SORT_BY_POS/fork0/chnk47", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "inputs", "type": "bam", "valexp": "MARK_DUPLICATES.output", "mode": "reference", "output": "output", "sweep": false, "sweepRootId": "inputs", "node": "MARK_DUPLICATES", "matchedFork": 0, "value": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk00-u55c78434a4/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk01-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk02-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk03-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk04-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk05-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk06-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk07-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk08-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk09-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk10-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk11-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk12-u55c78434a5/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk13-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk14-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk15-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk16-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk17-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk18-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk19-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk20-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk21-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk22-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk23-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk24-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk25-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk26-u55c78434a6/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk27-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk28-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk29-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk30-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk31-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk32-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk33-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk34-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk35-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk36-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk37-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk38-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk39-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk40-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk41-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk42-u55c78434a7/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk43-u55c78434a8/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk44-u55c78434a8/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk45-u55c78434a8/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk46-u55c78434a8/files/alignments.bam", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/chnk47-u55c78434a8/files/alignments.bam" ], "waiting": false }, { "id": "num_threads", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "num_threads", "node": "SORT_BY_POS", "matchedFork": 0, "value": 6, "waiting": false }, { "id": "mem_gb", "type": "int", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "mem_gb", "node": "SORT_BY_POS", "matchedFork": 0, "value": 2, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.MARK_DUPLICATES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/counter/sort_reads_by_pos" }, { "name": "SUBSAMPLE_READS", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUBSAMPLE_READS", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUBSAMPLE_READS", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUBSAMPLE_READS", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 6, "__vmem_gb": 9 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUBSAMPLE_READS/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUBSAMPLE_READS/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUBSAMPLE_READS/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 3, "__threads": 1, "__vmem_gb": 6, "chunk_len": 22310786, "chunk_start": 0, "subsample_info": [ { "library_type": "Gene Expression", "subsample_type": "raw_rpc", "target_read_pairs_per_cell": 5000, "library_subsample_rates": [ 0.027198081454083138 ] }, { "library_type": "Gene Expression", "subsample_type": "raw_rpc", "target_read_pairs_per_cell": 18384, "library_subsample_rates": [ 0.10000190589037287 ] }, { "library_type": "Gene Expression", "subsample_type": "raw_rpc", "target_read_pairs_per_cell": 20000, "library_subsample_rates": [ 0.10879232581633255 ] }, { "library_type": "Gene Expression", "subsample_type": "raw_rpc", "target_read_pairs_per_cell": 36767, "library_subsample_rates": [ 0.19999837216445493 ] }, { "library_type": "Gene Expression", "subsample_type": "raw_rpc", "target_read_pairs_per_cell": 50000, "library_subsample_rates": [ 0.27198081454083134 ] }, { "library_type": "Gene Expression", "subsample_type": "raw_rpc", "target_read_pairs_per_cell": 55151, "library_subsample_rates": [ 0.30000027805482776 ] }, { "library_type": "Gene Expression", "subsample_type": "raw_rpc", "target_read_pairs_per_cell": 73535, "library_subsample_rates": [ 0.40000218394520065 ] }, { "library_type": "Gene Expression", "subsample_type": "raw_rpc", "target_read_pairs_per_cell": 91918, "library_subsample_rates": [ 0.49999865021928275 ] }, { "library_type": "Gene Expression", "subsample_type": "raw_rpc", "target_read_pairs_per_cell": 110302, "library_subsample_rates": [ 0.6000005561096555 ] }, { "library_type": "Gene Expression", "subsample_type": "raw_rpc", "target_read_pairs_per_cell": 128686, "library_subsample_rates": [ 0.7000024620000285 ] }, { "library_type": "Gene Expression", "subsample_type": "raw_rpc", "target_read_pairs_per_cell": 147069, "library_subsample_rates": [ 0.7999989282741105 ] }, { "library_type": "Gene Expression", "subsample_type": "raw_rpc", "target_read_pairs_per_cell": 165453, "library_subsample_rates": [ 0.9000008341644834 ] }, { "library_type": "Gene Expression", "subsample_type": "raw_rpc", "target_read_pairs_per_cell": 183836, "library_subsample_rates": [ 1.0 ] }, { "library_type": "Gene Expression", "subsample_type": "conf_mapped_barcoded_filtered_bc_rpc", "target_read_pairs_per_cell": 5000, "library_subsample_rates": [ 0.15611931947782337 ] }, { "library_type": "Gene Expression", "subsample_type": "conf_mapped_barcoded_filtered_bc_rpc", "target_read_pairs_per_cell": 18384, "library_subsample_rates": [ 0.574019513856061 ] }, { "library_type": "Gene Expression", "subsample_type": "conf_mapped_barcoded_filtered_bc_rpc", "target_read_pairs_per_cell": 20000, "library_subsample_rates": [ 0.6244772779112935 ] }, { "library_type": "Gene Expression", "subsample_type": "conf_mapped_barcoded_filtered_bc_rpc", "target_read_pairs_per_cell": 36767, "library_subsample_rates": [ 0.0 ] }, { "library_type": "Gene Expression", "subsample_type": "conf_mapped_barcoded_filtered_bc_rpc", "target_read_pairs_per_cell": 50000, "library_subsample_rates": [ 0.0 ] }, { "library_type": "Gene Expression", "subsample_type": "conf_mapped_barcoded_filtered_bc_rpc", "target_read_pairs_per_cell": 55151, "library_subsample_rates": [ 0.0 ] }, { "library_type": "Gene Expression", "subsample_type": "conf_mapped_barcoded_filtered_bc_rpc", "target_read_pairs_per_cell": 73535, "library_subsample_rates": [ 0.0 ] }, { "library_type": "Gene Expression", "subsample_type": "conf_mapped_barcoded_filtered_bc_rpc", "target_read_pairs_per_cell": 91918, "library_subsample_rates": [ 0.0 ] }, { "library_type": "Gene Expression", "subsample_type": "conf_mapped_barcoded_filtered_bc_rpc", "target_read_pairs_per_cell": 110302, "library_subsample_rates": [ 0.0 ] }, { "library_type": "Gene Expression", "subsample_type": "conf_mapped_barcoded_filtered_bc_rpc", "target_read_pairs_per_cell": 128686, "library_subsample_rates": [ 0.0 ] }, { "library_type": "Gene Expression", "subsample_type": "conf_mapped_barcoded_filtered_bc_rpc", "target_read_pairs_per_cell": 147069, "library_subsample_rates": [ 0.0 ] }, { "library_type": "Gene Expression", "subsample_type": "conf_mapped_barcoded_filtered_bc_rpc", "target_read_pairs_per_cell": 165453, "library_subsample_rates": [ 0.0 ] }, { "library_type": "Gene Expression", "subsample_type": "conf_mapped_barcoded_filtered_bc_rpc", "target_read_pairs_per_cell": 183836, "library_subsample_rates": [ 0.0 ] } ] }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUBSAMPLE_READS/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "molecule_info", "type": "h5", "valexp": "REPORT_MOLECULES.output", "mode": "reference", "output": "output", "sweep": false, "sweepRootId": "molecule_info", "node": "REPORT_MOLECULES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/join-u55c7843d69/files/output.h5", "waiting": false }, { "id": "filtered_barcodes", "type": "csv", "valexp": "FILTER_BARCODES.filtered_barcodes", "mode": "reference", "output": "filtered_barcodes", "sweep": false, "sweepRootId": "filtered_barcodes", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_barcodes.csv", "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUBSAMPLE_READS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.FILTER_BARCODES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUBSAMPLE_READS" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/counter/subsample_reads" }, { "name": "SUMMARIZE_BASIC_REPORTS", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_BASIC_REPORTS", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_BASIC_REPORTS", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_BASIC_REPORTS/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_BASIC_REPORTS/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_BASIC_REPORTS/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_BASIC_REPORTS/fork0/chnk0", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "attach_bcs_and_umis_summary", "type": "json", "valexp": "ATTACH_BCS_AND_UMIS.summary", "mode": "reference", "output": "summary", "sweep": false, "sweepRootId": "attach_bcs_and_umis_summary", "node": "ATTACH_BCS_AND_UMIS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/ATTACH_BCS_AND_UMIS/fork0/join-u55c78424bd/files/summary.json", "waiting": false }, { "id": "mark_duplicates_summary", "type": "json", "valexp": "MARK_DUPLICATES.summary", "mode": "reference", "output": "summary", "sweep": false, "sweepRootId": "mark_duplicates_summary", "node": "MARK_DUPLICATES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/join-u55c784348a/files/summary.json", "waiting": false }, { "id": "count_genes_reporter_summary", "type": "json", "valexp": "COUNT_GENES.reporter_summary", "mode": "reference", "output": "reporter_summary", "sweep": false, "sweepRootId": "count_genes_reporter_summary", "node": "COUNT_GENES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/join-u55c78435e4/files/reporter_summary.json", "waiting": false }, { "id": "filter_barcodes_summary", "type": "json", "valexp": "FILTER_BARCODES.summary", "mode": "reference", "output": "summary", "sweep": false, "sweepRootId": "filter_barcodes_summary", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/summary.json", "waiting": false }, { "id": "subsample_molecules_summary", "type": "json", "valexp": "SUBSAMPLE_READS.summary", "mode": "reference", "output": "summary", "sweep": false, "sweepRootId": "subsample_molecules_summary", "node": "SUBSAMPLE_READS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUBSAMPLE_READS/fork0/join-u55c7843f5c/files/summary.json", "waiting": false }, { "id": "align", "type": "map", "valexp": "SUMMARIZE_READ_REPORTS.align", "mode": "reference", "output": "align", "sweep": false, "sweepRootId": "align", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": { "aligner": "star", "high_conf_mapq": 255 }, "waiting": false }, { "id": "barcode_whitelist", "type": "string", "valexp": "self.barcode_whitelist", "mode": "reference", "output": "barcode_whitelist", "sweep": false, "sweepRootId": "barcode_whitelist", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": "3M-february-2018", "waiting": false }, { "id": "gem_groups", "type": "int", "valexp": "SUMMARIZE_READ_REPORTS.gem_groups", "mode": "reference", "output": "gem_groups", "sweep": false, "sweepRootId": "gem_groups", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": [ 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1 ], "waiting": false }, { "id": "raw_gene_bc_matrices_h5", "type": "h5", "valexp": "COUNT_GENES.matrices_h5", "mode": "reference", "output": "matrices_h5", "sweep": false, "sweepRootId": "raw_gene_bc_matrices_h5", "node": "COUNT_GENES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/COUNT_GENES/fork0/join-u55c78435e4/files/matrices_h5.h5", "waiting": false }, { "id": "filtered_gene_bc_matrices_h5", "type": "h5", "valexp": "FILTER_BARCODES.filtered_matrices_h5", "mode": "reference", "output": "filtered_matrices_h5", "sweep": false, "sweepRootId": "filtered_gene_bc_matrices_h5", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_matrices_h5.h5", "waiting": false }, { "id": "reference_path", "type": "path", "valexp": "self.reference_path", "mode": "value", "output": "", "sweep": false, "sweepRootId": "reference_path", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/mm10_premrna_v1.0_pcg-only", "waiting": false }, { "id": "extract_reads_summary", "type": "json", "valexp": "SUMMARIZE_READ_REPORTS.summary", "mode": "reference", "output": "summary", "sweep": false, "sweepRootId": "extract_reads_summary", "node": "SUMMARIZE_READ_REPORTS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/join-u55c78419a9/files/summary.json", "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.MARK_DUPLICATES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.COUNT_GENES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.FILTER_BARCODES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUBSAMPLE_READS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/counter/summarize_basic_reports" }, { "name": "SUMMARIZE_READ_REPORTS", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS", "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": { "__threads": 1, "__mem_gb": 1, "__vmem_gb": 4 }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0", "names": [ "complete", "invocation", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/split", "names": [ "args", "complete", "jobinfo", "log", "stage_defs", "stderr", "stdout" ] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/join", "names": [ "args", "chunk_defs", "chunk_outs", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] }, "chunks": [ { "index": 0, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk00-u55c78414d0/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk00", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 1, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk01-u55c78414d0/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk01", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 2, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk02-u55c78414d1/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk02", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 3, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk03-u55c78414d1/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk03", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 4, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk04-u55c78414d1/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk04", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 5, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk05-u55c78414d1/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk05", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 6, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk06-u55c78414d1/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk06", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 7, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk07-u55c78414d2/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk07", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 8, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk08-u55c78414d2/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk08", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 9, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk09-u55c78414d2/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk09", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 10, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk10-u55c78414d2/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk10", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 11, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk11-u55c78414d2/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk11", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 12, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk12-u55c78414d2/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk12", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 13, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk13-u55c78414d2/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk13", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 14, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk14-u55c78414d3/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk14", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 15, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk15-u55c78414d3/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk15", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 16, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk16-u55c78414d3/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk16", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 17, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk17-u55c78414d3/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk17", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 18, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk18-u55c78414d3/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk18", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 19, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk19-u55c78414d3/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk19", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 20, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk20-u55c78414d3/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk20", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 21, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk21-u55c78414d3/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk21", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 22, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk22-u55c78414d3/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk22", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 23, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk23-u55c78414d4/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk23", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 24, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk24-u55c78414d4/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk24", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 25, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk25-u55c78414d4/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk25", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 26, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk26-u55c78414d4/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk26", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 27, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk27-u55c78414d4/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk27", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 28, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk28-u55c78414d4/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk28", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 29, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk29-u55c78414d4/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk29", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 30, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk30-u55c78414d5/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk30", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 31, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk31-u55c78414d5/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk31", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 32, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk32-u55c78414d5/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk32", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 33, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk33-u55c78414d5/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk33", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 34, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk34-u55c78414d5/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk34", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 35, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk35-u55c78414d5/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk35", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 36, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk36-u55c78414d5/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk36", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 37, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk37-u55c78414d5/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk37", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 38, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk38-u55c78414d5/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk38", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 39, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk39-u55c78414d6/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk39", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 40, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk40-u55c78414d6/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk40", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 41, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk41-u55c78414d6/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk41", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 42, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk42-u55c78414d6/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk42", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 43, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk43-u55c78414d6/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk43", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } }, { "index": 44, "chunkDef": { "__mem_gb": 1, "__threads": 1, "__vmem_gb": 4, "chunk_tags": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk44-u55c78414d6/files/tags.fastq/1.fastq.lz4", "read1": null, "read2": null }, "state": "complete", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_READ_REPORTS/fork0/chnk44", "names": [ "args", "complete", "jobinfo", "log", "outs", "stderr", "stdout" ] } } ], "bindings": { "Argument": [ { "id": "align", "type": "map", "valexp": "EXTRACT_READS.align", "mode": "reference", "output": "align", "sweep": false, "sweepRootId": "align", "node": "EXTRACT_READS", "matchedFork": 0, "value": { "aligner": "star", "high_conf_mapq": 255 }, "waiting": false }, { "id": "library_types", "type": "string", "valexp": "EXTRACT_READS.library_types", "mode": "reference", "output": "library_types", "sweep": false, "sweepRootId": "library_types", "node": "EXTRACT_READS", "matchedFork": 0, "value": [ "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression", "Gene Expression" ], "waiting": false }, { "id": "read_groups", "type": "string", "valexp": "EXTRACT_READS.read_groups", "mode": "reference", "output": "read_groups", "sweep": false, "sweepRootId": "read_groups", "node": "EXTRACT_READS", "matchedFork": 0, "value": [ "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7", "10X_G171C_pcgonly_UseThis:0:1:H3LTJBBXX:7" ], "waiting": false }, { "id": "read1s", "type": "fastq", "valexp": "EXTRACT_READS.reads", "mode": "reference", "output": "reads", "sweep": false, "sweepRootId": "read1s", "node": "EXTRACT_READS", "matchedFork": 0, "value": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk00-u55c78414d0/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk01-u55c78414d0/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk02-u55c78414d1/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk03-u55c78414d1/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk04-u55c78414d1/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk05-u55c78414d1/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk06-u55c78414d1/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk07-u55c78414d2/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk08-u55c78414d2/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk09-u55c78414d2/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk10-u55c78414d2/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk11-u55c78414d2/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk12-u55c78414d2/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk13-u55c78414d2/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk14-u55c78414d3/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk15-u55c78414d3/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk16-u55c78414d3/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk17-u55c78414d3/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk18-u55c78414d3/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk19-u55c78414d3/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk20-u55c78414d3/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk21-u55c78414d3/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk22-u55c78414d3/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk23-u55c78414d4/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk24-u55c78414d4/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk25-u55c78414d4/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk26-u55c78414d4/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk27-u55c78414d4/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk28-u55c78414d4/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk29-u55c78414d4/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk30-u55c78414d5/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk31-u55c78414d5/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk32-u55c78414d5/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk33-u55c78414d5/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk34-u55c78414d5/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk35-u55c78414d5/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk36-u55c78414d5/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk37-u55c78414d5/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk38-u55c78414d5/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk39-u55c78414d6/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk40-u55c78414d6/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk41-u55c78414d6/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk42-u55c78414d6/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk43-u55c78414d6/files/reads.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk44-u55c78414d6/files/reads.fastq/1.fastq.lz4" ], "waiting": false }, { "id": "barcode_counts", "type": "json", "valexp": "EXTRACT_READS.barcode_counts", "mode": "reference", "output": "barcode_counts", "sweep": false, "sweepRootId": "barcode_counts", "node": "EXTRACT_READS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/join-u55c78414cb/files/barcode_counts.json", "waiting": false }, { "id": "bam_comments", "type": "string", "valexp": "EXTRACT_READS.bam_comments", "mode": "reference", "output": "bam_comments", "sweep": false, "sweepRootId": "bam_comments", "node": "EXTRACT_READS", "matchedFork": 0, "value": [ "10x_bam_to_fastq:I1(BC:QT)", "10x_bam_to_fastq:R1(CR:CY,UR:UY)", "10x_bam_to_fastq:R2(SEQ:QUAL)" ], "waiting": false }, { "id": "read2s", "type": "fastq", "valexp": "EXTRACT_READS.read2s", "mode": "reference", "output": "read2s", "sweep": false, "sweepRootId": "read2s", "node": "EXTRACT_READS", "matchedFork": 0, "value": [], "waiting": false }, { "id": "retain_fastqs", "type": "bool", "valexp": "self.retain_fastqs", "mode": "value", "output": "", "sweep": false, "sweepRootId": "retain_fastqs", "node": "SC_RNA_COUNTER", "matchedFork": 0, "value": false, "waiting": false }, { "id": "feature_counts", "type": "json", "valexp": "EXTRACT_READS.feature_counts", "mode": "reference", "output": "feature_counts", "sweep": false, "sweepRootId": "feature_counts", "node": "EXTRACT_READS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/join-u55c78414cb/files/feature_counts.json", "waiting": false }, { "id": "library_ids", "type": "string", "valexp": "EXTRACT_READS.library_ids", "mode": "reference", "output": "library_ids", "sweep": false, "sweepRootId": "library_ids", "node": "EXTRACT_READS", "matchedFork": 0, "value": [ "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0", "0" ], "waiting": false }, { "id": "tags", "type": "fastq", "valexp": "EXTRACT_READS.tags", "mode": "reference", "output": "tags", "sweep": false, "sweepRootId": "tags", "node": "EXTRACT_READS", "matchedFork": 0, "value": [ "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk00-u55c78414d0/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk01-u55c78414d0/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk02-u55c78414d1/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk03-u55c78414d1/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk04-u55c78414d1/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk05-u55c78414d1/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk06-u55c78414d1/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk07-u55c78414d2/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk08-u55c78414d2/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk09-u55c78414d2/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk10-u55c78414d2/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk11-u55c78414d2/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk12-u55c78414d2/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk13-u55c78414d2/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk14-u55c78414d3/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk15-u55c78414d3/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk16-u55c78414d3/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk17-u55c78414d3/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk18-u55c78414d3/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk19-u55c78414d3/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk20-u55c78414d3/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk21-u55c78414d3/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk22-u55c78414d3/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk23-u55c78414d4/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk24-u55c78414d4/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk25-u55c78414d4/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk26-u55c78414d4/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk27-u55c78414d4/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk28-u55c78414d4/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk29-u55c78414d4/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk30-u55c78414d5/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk31-u55c78414d5/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk32-u55c78414d5/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk33-u55c78414d5/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk34-u55c78414d5/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk35-u55c78414d5/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk36-u55c78414d5/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk37-u55c78414d5/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk38-u55c78414d5/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk39-u55c78414d6/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk40-u55c78414d6/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk41-u55c78414d6/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk42-u55c78414d6/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk43-u55c78414d6/files/tags.fastq/1.fastq.lz4", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/chnk44-u55c78414d6/files/tags.fastq/1.fastq.lz4" ], "waiting": false }, { "id": "chemistry_def", "type": "map", "valexp": "self.chemistry_def", "mode": "reference", "output": "chemistry_def", "sweep": false, "sweepRootId": "chemistry_def", "node": "SETUP_CHUNKS", "matchedFork": 0, "value": { "si_read_offset": 0, "strandedness": "+", "umi_read_offset": 16, "barcode_read_type": "R1", "umi_read_type": "R1", "barcode_read_length": 16, "rna_read_type": "R2", "barcode_whitelist": "3M-february-2018", "si_read_type": "I1", "rna_read_length": null, "description": "Single Cell 3' v3", "rna_read_offset": 0, "barcode_read_offset": 0, "rna_read2_type": null, "endedness": "three_prime", "name": "SC3Pv3", "umi_read_length": 12, "si_read_length": null, "read_type_to_bcl2fastq_filename": { "I1": "I1", "I2": null, "R1": "R1", "R2": "R2" }, "rna_read2_length": null, "rna_read2_offset": 0, "read_type_to_bcl_processor_filename": { "I1": "I1", "I2": "I2", "R1": "RA", "R2": null } }, "waiting": false }, { "id": "extract_reads_summary", "type": "json", "valexp": "EXTRACT_READS.summary", "mode": "reference", "output": "summary", "sweep": false, "sweepRootId": "extract_reads_summary", "node": "EXTRACT_READS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/EXTRACT_READS/fork0/join-u55c78414cb/files/summary.json", "waiting": false }, { "id": "gem_groups", "type": "int", "valexp": "EXTRACT_READS.gem_groups", "mode": "reference", "output": "gem_groups", "sweep": false, "sweepRootId": "gem_groups", "node": "EXTRACT_READS", "matchedFork": 0, "value": [ 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1 ], "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/counter/summarize_read_reports" }, { "name": "_CRISPR_ANALYZER", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER", "type": "pipeline", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER", "state": "disabled", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": null, "state": "disabled", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/fork0", "names": [ "disabled", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/fork0/split", "names": [] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/fork0/join", "names": [] }, "chunks": [], "bindings": { "Argument": [ { "id": "counter_metrics_json", "type": "json", "valexp": "_BASIC_SC_RNA_COUNTER.summary", "mode": "reference", "output": "summary", "sweep": false, "sweepRootId": "counter_metrics_json", "node": "SUMMARIZE_BASIC_REPORTS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_BASIC_REPORTS/fork0/join-u55c784402e/files/summary.json", "waiting": false }, { "id": "molecule_info", "type": "h5", "valexp": "_BASIC_SC_RNA_COUNTER.molecule_info", "mode": "reference", "output": "output", "sweep": false, "sweepRootId": "molecule_info", "node": "REPORT_MOLECULES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/join-u55c7843d69/files/output.h5", "waiting": false }, { "id": "filtered_feature_counts_matrix", "type": "h5", "valexp": "_BASIC_SC_RNA_COUNTER.filtered_gene_bc_matrices_h5", "mode": "reference", "output": "filtered_matrices_h5", "sweep": false, "sweepRootId": "filtered_feature_counts_matrix", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_matrices_h5.h5", "waiting": false }, { "id": "filtered_barcodes", "type": "csv", "valexp": "_BASIC_SC_RNA_COUNTER.filtered_barcodes", "mode": "reference", "output": "filtered_barcodes", "sweep": false, "sweepRootId": "filtered_barcodes", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_barcodes.csv", "waiting": false }, { "id": "feature_reference", "type": "csv", "valexp": "self.feature_reference", "mode": "value", "output": "", "sweep": false, "sweepRootId": "feature_reference", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false } ], "Return": [ { "id": "crispr_analysis_metrics", "type": "json", "valexp": "CALL_PROTOSPACERS.protospacer_call_metrics_json", "mode": "reference", "output": "protospacer_call_metrics_json", "sweep": false, "sweepRootId": "crispr_analysis_metrics", "node": "CALL_PROTOSPACERS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "crispr_analysis", "type": "path", "valexp": "SUMMARIZE_CRISPR_ANALYSIS.crispr_analysis", "mode": "reference", "output": "crispr_analysis", "sweep": false, "sweepRootId": "crispr_analysis", "node": "SUMMARIZE_CRISPR_ANALYSIS", "matchedFork": 0, "value": null, "waiting": false } ] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.DISABLE_FEATURE_STAGES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.CALL_PROTOSPACERS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.SUMMARIZE_CRISPR_ANALYSIS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER" } ], "stagecodeLang": "", "stagecodeCmd": "" }, { "name": "CALL_PROTOSPACERS", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.CALL_PROTOSPACERS", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/CALL_PROTOSPACERS", "state": "disabled", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/CALL_PROTOSPACERS", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": null, "state": "disabled", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/CALL_PROTOSPACERS/fork0", "names": [ "disabled", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/CALL_PROTOSPACERS/fork0/split", "names": [] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/CALL_PROTOSPACERS/fork0/join", "names": [] }, "chunks": [], "bindings": { "Argument": [ { "id": "filtered_barcodes", "type": "csv", "valexp": "self.filtered_barcodes", "mode": "reference", "output": "filtered_barcodes", "sweep": false, "sweepRootId": "filtered_barcodes", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_barcodes.csv", "waiting": false }, { "id": "molecule_info", "type": "h5", "valexp": "self.molecule_info", "mode": "reference", "output": "output", "sweep": false, "sweepRootId": "molecule_info", "node": "REPORT_MOLECULES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/REPORT_MOLECULES/fork0/join-u55c7843d69/files/output.h5", "waiting": false }, { "id": "filtered_feature_counts_matrix", "type": "h5", "valexp": "self.filtered_feature_counts_matrix", "mode": "reference", "output": "filtered_matrices_h5", "sweep": false, "sweepRootId": "filtered_feature_counts_matrix", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_matrices_h5.h5", "waiting": false }, { "id": "feature_reference", "type": "csv", "valexp": "self.feature_reference", "mode": "value", "output": "", "sweep": false, "sweepRootId": "feature_reference", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "counter_metrics_json", "type": "json", "valexp": "self.counter_metrics_json", "mode": "reference", "output": "summary", "sweep": false, "sweepRootId": "counter_metrics_json", "node": "SUMMARIZE_BASIC_REPORTS", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/SUMMARIZE_BASIC_REPORTS/fork0/join-u55c784402e/files/summary.json", "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.CALL_PROTOSPACERS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.DISABLE_FEATURE_STAGES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.CALL_PROTOSPACERS" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/feature/call_protospacers" }, { "name": "SUMMARIZE_CRISPR_ANALYSIS", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.SUMMARIZE_CRISPR_ANALYSIS", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/SUMMARIZE_CRISPR_ANALYSIS", "state": "disabled", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/SUMMARIZE_CRISPR_ANALYSIS", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": null, "state": "disabled", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/SUMMARIZE_CRISPR_ANALYSIS/fork0", "names": [ "disabled", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/SUMMARIZE_CRISPR_ANALYSIS/fork0/split", "names": [] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/SUMMARIZE_CRISPR_ANALYSIS/fork0/join", "names": [] }, "chunks": [], "bindings": { "Argument": [ { "id": "perturbation_effects_by_target", "type": "path", "valexp": "_PERTURBATIONS_BY_TARGET.perturbation_effects_path", "mode": "reference", "output": "perturbation_effects_path", "sweep": false, "sweepRootId": "perturbation_effects_by_target", "node": "_PERTURBATIONS_BY_TARGET", "matchedFork": 0, "value": null, "waiting": false }, { "id": "protospacer_calls_per_cell", "type": "csv", "valexp": "CALL_PROTOSPACERS.protospacer_calls_per_cell", "mode": "reference", "output": "protospacer_calls_per_cell", "sweep": false, "sweepRootId": "protospacer_calls_per_cell", "node": "CALL_PROTOSPACERS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "protospacer_umi_thresholds_csv", "type": "csv", "valexp": "CALL_PROTOSPACERS.protospacer_umi_thresholds_csv", "mode": "reference", "output": "protospacer_umi_thresholds_csv", "sweep": false, "sweepRootId": "protospacer_umi_thresholds_csv", "node": "CALL_PROTOSPACERS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "protospacer_umi_thresholds_json", "type": "json", "valexp": "CALL_PROTOSPACERS.protospacer_umi_thresholds_json", "mode": "reference", "output": "protospacer_umi_thresholds_json", "sweep": false, "sweepRootId": "protospacer_umi_thresholds_json", "node": "CALL_PROTOSPACERS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "perturbation_efficiencies_by_feature", "type": "csv", "valexp": "_PERTURBATIONS_BY_FEATURE.perturbation_efficiencies", "mode": "reference", "output": "perturbation_efficiencies", "sweep": false, "sweepRootId": "perturbation_efficiencies_by_feature", "node": "_PERTURBATIONS_BY_FEATURE", "matchedFork": 0, "value": null, "waiting": false }, { "id": "perturbation_effects_by_feature", "type": "path", "valexp": "_PERTURBATIONS_BY_FEATURE.perturbation_effects_path", "mode": "reference", "output": "perturbation_effects_path", "sweep": false, "sweepRootId": "perturbation_effects_by_feature", "node": "_PERTURBATIONS_BY_FEATURE", "matchedFork": 0, "value": null, "waiting": false }, { "id": "feature_reference", "type": "csv", "valexp": "self.feature_reference", "mode": "value", "output": "", "sweep": false, "sweepRootId": "feature_reference", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "protospacer_calls_summary", "type": "csv", "valexp": "CALL_PROTOSPACERS.protospacer_calls_summary", "mode": "reference", "output": "protospacer_calls_summary", "sweep": false, "sweepRootId": "protospacer_calls_summary", "node": "CALL_PROTOSPACERS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "cells_per_protospacer", "type": "json", "valexp": "CALL_PROTOSPACERS.cells_per_protospacer", "mode": "reference", "output": "cells_per_protospacer", "sweep": false, "sweepRootId": "cells_per_protospacer", "node": "CALL_PROTOSPACERS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "perturbations_efficiencies_by_target", "type": "csv", "valexp": "_PERTURBATIONS_BY_TARGET.perturbation_efficiencies", "mode": "reference", "output": "perturbation_efficiencies", "sweep": false, "sweepRootId": "perturbations_efficiencies_by_target", "node": "_PERTURBATIONS_BY_TARGET", "matchedFork": 0, "value": null, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER._PERTURBATIONS_BY_TARGET", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.SUMMARIZE_CRISPR_ANALYSIS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.CALL_PROTOSPACERS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.SUMMARIZE_CRISPR_ANALYSIS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER._PERTURBATIONS_BY_FEATURE", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.SUMMARIZE_CRISPR_ANALYSIS" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.DISABLE_FEATURE_STAGES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.SUMMARIZE_CRISPR_ANALYSIS" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/feature/summarize_crispr_analysis" }, { "name": "_PERTURBATIONS_BY_FEATURE", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER._PERTURBATIONS_BY_FEATURE", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/_PERTURBATIONS_BY_FEATURE", "state": "disabled", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/_PERTURBATIONS_BY_FEATURE", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": null, "state": "disabled", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/_PERTURBATIONS_BY_FEATURE/fork0", "names": [ "disabled", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/_PERTURBATIONS_BY_FEATURE/fork0/split", "names": [] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/_PERTURBATIONS_BY_FEATURE/fork0/join", "names": [] }, "chunks": [], "bindings": { "Argument": [ { "id": "protospacer_calls_per_cell", "type": "csv", "valexp": "CALL_PROTOSPACERS.protospacer_calls_per_cell", "mode": "reference", "output": "protospacer_calls_per_cell", "sweep": false, "sweepRootId": "protospacer_calls_per_cell", "node": "CALL_PROTOSPACERS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "filtered_feature_counts_matrix", "type": "h5", "valexp": "self.filtered_feature_counts_matrix", "mode": "reference", "output": "filtered_matrices_h5", "sweep": false, "sweepRootId": "filtered_feature_counts_matrix", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_matrices_h5.h5", "waiting": false }, { "id": "feature_reference", "type": "csv", "valexp": "self.feature_reference", "mode": "value", "output": "", "sweep": false, "sweepRootId": "feature_reference", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "by_feature", "type": "bool", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "by_feature", "node": "_PERTURBATIONS_BY_FEATURE", "matchedFork": 0, "value": true, "waiting": false }, { "id": "ignore_multiples", "type": "bool", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "ignore_multiples", "node": "_PERTURBATIONS_BY_FEATURE", "matchedFork": 0, "value": false, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.CALL_PROTOSPACERS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER._PERTURBATIONS_BY_FEATURE" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER._PERTURBATIONS_BY_FEATURE" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.DISABLE_FEATURE_STAGES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER._PERTURBATIONS_BY_FEATURE" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/feature/measure_perturbations" }, { "name": "_PERTURBATIONS_BY_TARGET", "fqname": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER._PERTURBATIONS_BY_TARGET", "type": "stage", "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/_PERTURBATIONS_BY_TARGET", "state": "disabled", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/_PERTURBATIONS_BY_TARGET", "names": [] }, "sweepbindings": [], "forks": [ { "index": 0, "argPermute": {}, "joinDef": null, "state": "disabled", "metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/_PERTURBATIONS_BY_TARGET/fork0", "names": [ "disabled", "outs", "vdrkill" ] }, "split_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/_PERTURBATIONS_BY_TARGET/fork0/split", "names": [] }, "join_metadata": { "path": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_CRISPR_ANALYZER/_PERTURBATIONS_BY_TARGET/fork0/join", "names": [] }, "chunks": [], "bindings": { "Argument": [ { "id": "protospacer_calls_per_cell", "type": "csv", "valexp": "CALL_PROTOSPACERS.protospacer_calls_per_cell", "mode": "reference", "output": "protospacer_calls_per_cell", "sweep": false, "sweepRootId": "protospacer_calls_per_cell", "node": "CALL_PROTOSPACERS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "filtered_feature_counts_matrix", "type": "h5", "valexp": "self.filtered_feature_counts_matrix", "mode": "reference", "output": "filtered_matrices_h5", "sweep": false, "sweepRootId": "filtered_feature_counts_matrix", "node": "FILTER_BARCODES", "matchedFork": 0, "value": "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_pcgonly_UseThis/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/FILTER_BARCODES/fork0/join-u55c7843cb2/files/filtered_matrices_h5.h5", "waiting": false }, { "id": "feature_reference", "type": "csv", "valexp": "self.feature_reference", "mode": "value", "output": "", "sweep": false, "sweepRootId": "feature_reference", "node": "SC_RNA_COUNTER_CS", "matchedFork": 0, "value": null, "waiting": false }, { "id": "by_feature", "type": "bool", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "by_feature", "node": "_PERTURBATIONS_BY_TARGET", "matchedFork": 0, "value": false, "waiting": false }, { "id": "ignore_multiples", "type": "bool", "valexp": "", "mode": "value", "output": "", "sweep": false, "sweepRootId": "ignore_multiples", "node": "_PERTURBATIONS_BY_TARGET", "matchedFork": 0, "value": false, "waiting": false } ], "Return": [] } } ], "edges": [ { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.CALL_PROTOSPACERS", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER._PERTURBATIONS_BY_TARGET" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER._PERTURBATIONS_BY_TARGET" }, { "from": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.DISABLE_FEATURE_STAGES", "to": "ID.10X_G171C_pcgonly_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER._PERTURBATIONS_BY_TARGET" } ], "stagecodeLang": "Python", "stagecodeCmd": "/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/mro/stages/feature/measure_perturbations" } ]