========================================================== Starting on : Wed Oct 16 10:39:26 EDT 2019 Running on node : scc-wj2 Current job ID : 49088 Current job name : Nash_2 Task index number : ========================================================== /share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/bin cellranger count (3.1.0) Copyright (c) 2019 10x Genomics, Inc. All rights reserved. ------------------------------------------------------------------------------- Martian Runtime - '3.1.0-v3.2.3' Serving UI at http://scc-wj2:45431?auth=RVwoTiYmNOwMV3GHoQB_H1iuVCbKIwktl85WfgXDG68 Running preflight checks (please wait)... 2019-10-16 10:39:28 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF 2019-10-16 10:39:29 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF.fork0.chnk0.main 2019-10-16 10:39:33 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF Checking sample info... Checking FASTQ folder... Checking libraries... Checking reference... Checking reference_path (/restricted/projectnb/waxmanlab/kkarri/tabula_muris/drop-seq/mm10_ref/updated-usethis-mm10plus-pcg-ercc-lnc-nodups) on scc-wj2... Checking chemistry... Checking optional arguments... mrc: '3.1.0-v3.2.3' mrp: '3.1.0-v3.2.3' Anaconda: Python 2.7.14 :: Anaconda, Inc. numpy: 1.14.2 scipy: 1.0.1 pysam: 0.14.1 h5py: 2.8.0 pandas: 0.22.0 STAR: STAR_2.5.1b samtools: samtools 1.7 Using htslib 1.7 Copyright (C) 2018 Genome Research Ltd. 2019-10-16 10:39:41 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION 2019-10-16 10:39:42 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION.fork0.chnk0.main 2019-10-16 10:39:42 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.DISABLE_FEATURE_STAGES 2019-10-16 10:39:43 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.DISABLE_FEATURE_STAGES.fork0.chnk0.main 2019-10-16 10:39:43 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR.DETECT_CHEMISTRY 2019-10-16 10:39:43 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR.DETECT_CHEMISTRY.fork0.chnk0.main 2019-10-16 10:39:44 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION 2019-10-16 10:39:45 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.DISABLE_FEATURE_STAGES 2019-10-16 10:39:49 [runtime] (progress) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR.DETECT_CHEMISTRY.fork0.chnk0: Indexing genome... 2019-10-16 10:40:07 [runtime] (progress) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR.DETECT_CHEMISTRY.fork0.chnk0: Building transcriptome... 2019-10-16 10:40:13 [runtime] (progress) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR.DETECT_CHEMISTRY.fork0.chnk0: Building kmer index... 2019-10-16 10:41:02 [runtime] (progress) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR.DETECT_CHEMISTRY.fork0.chnk0: Mapping reads... 2019-10-16 10:41:17 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR.DETECT_CHEMISTRY 2019-10-16 10:41:19 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS 2019-10-16 10:41:19 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS.fork0.chnk0.main 2019-10-16 10:41:25 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS 2019-10-16 10:41:27 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS 2019-10-16 10:41:27 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS.fork0.split 2019-10-16 10:41:27 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHECK_BARCODES_COMPATIBILITY 2019-10-16 10:41:27 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHECK_BARCODES_COMPATIBILITY.fork0.split 2019-10-16 10:41:29 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS 2019-10-16 10:41:29 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS.fork0.chnk0.main 2019-10-16 10:41:30 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS.fork0.chnk1.main 2019-10-16 10:41:30 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS.fork0.chnk2.main 2019-10-16 10:41:30 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS.fork0.chnk3.main 2019-10-16 10:42:07 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHECK_BARCODES_COMPATIBILITY 2019-10-16 10:42:40 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHECK_BARCODES_COMPATIBILITY.fork0.join 2019-10-16 10:45:10 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHECK_BARCODES_COMPATIBILITY 2019-10-16 10:47:58 [runtime] (update) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS.fork0 chunks running (0/4 completed) 2019-10-16 10:54:12 [runtime] (update) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS.fork0 chunks running (0/4 completed) 2019-10-16 11:00:30 [runtime] (update) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS.fork0 chunks running (0/4 completed) 2019-10-16 11:06:42 [runtime] (update) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS.fork0 chunks running (1/4 completed) 2019-10-16 11:08:38 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS 2019-10-16 11:08:39 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS.fork0.join 2019-10-16 11:08:40 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS 2019-10-16 11:08:41 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS 2019-10-16 11:08:42 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.split 2019-10-16 11:08:45 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS 2019-10-16 11:08:48 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk00.main 2019-10-16 11:08:48 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk01.main 2019-10-16 11:08:49 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk02.main 2019-10-16 11:08:49 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk03.main 2019-10-16 11:08:50 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk04.main 2019-10-16 11:08:50 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk05.main 2019-10-16 11:08:51 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk06.main 2019-10-16 11:08:51 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk07.main 2019-10-16 11:08:52 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk08.main 2019-10-16 11:08:52 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk09.main 2019-10-16 11:08:53 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk10.main 2019-10-16 11:08:53 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk11.main 2019-10-16 11:08:54 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk12.main 2019-10-16 11:08:54 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk13.main 2019-10-16 11:08:57 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk14.main 2019-10-16 11:08:57 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk15.main 2019-10-16 11:08:58 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk16.main 2019-10-16 11:08:58 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk17.main 2019-10-16 11:08:59 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk18.main 2019-10-16 11:09:00 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk19.main 2019-10-16 11:09:00 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk20.main 2019-10-16 11:09:01 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk21.main 2019-10-16 11:09:01 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk22.main 2019-10-16 11:09:01 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk23.main 2019-10-16 11:09:02 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk24.main 2019-10-16 11:09:02 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk25.main 2019-10-16 11:09:03 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk26.main 2019-10-16 11:09:03 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk27.main 2019-10-16 11:09:03 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk28.main 2019-10-16 11:09:04 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk29.main 2019-10-16 11:09:05 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk30.main 2019-10-16 11:09:05 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk31.main 2019-10-16 11:09:05 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk32.main 2019-10-16 11:09:06 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk33.main 2019-10-16 11:09:06 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk34.main 2019-10-16 11:09:07 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk35.main 2019-10-16 11:09:07 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk36.main 2019-10-16 11:09:07 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk37.main 2019-10-16 11:09:08 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk38.main 2019-10-16 11:09:08 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk39.main 2019-10-16 11:15:00 [runtime] (update) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0 chunks running (2/40 completed) 2019-10-16 11:20:03 [runtime] (update) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0 chunks running (30/40 completed) 2019-10-16 11:23:39 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS 2019-10-16 11:23:40 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.join 2019-10-16 11:23:54 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS 2019-10-16 11:24:03 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS 2019-10-16 11:24:03 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS.fork0.split 2019-10-16 11:24:06 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS 2019-10-16 11:24:14 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS.fork0.chnk00.main 2019-10-16 11:24:15 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS.fork0.chnk01.main 2019-10-16 11:24:16 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS.fork0.chnk02.main 2019-10-16 11:24:16 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS.fork0.chnk03.main 2019-10-16 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ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS.fork0.chnk10.main 2019-10-16 11:24:25 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS.fork0.chnk11.main 2019-10-16 11:24:28 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS.fork0.chnk12.main 2019-10-16 11:24:32 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS.fork0.chnk13.main 2019-10-16 11:24:37 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS.fork0.chnk14.main 2019-10-16 11:24:41 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS.fork0.chnk15.main 2019-10-16 11:24:43 [runtime] (run:local) 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ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS.fork0.chnk30.main 2019-10-16 12:05:22 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS.fork0.chnk31.main 2019-10-16 12:05:22 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS.fork0.chnk32.main 2019-10-16 12:05:23 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS.fork0.chnk33.main 2019-10-16 12:05:23 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS.fork0.chnk34.main 2019-10-16 12:05:23 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS.fork0.chnk35.main 2019-10-16 12:05:25 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS.fork0.chnk36.main 2019-10-16 12:11:13 [runtime] (update) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS.fork0 chunks running (2/37 completed) 2019-10-16 12:14:20 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS 2019-10-16 12:14:21 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS.fork0.join 2019-10-16 12:17:46 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.ATTACH_BCS_AND_UMIS 2019-10-16 12:18:20 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.BUCKET_BY_BC 2019-10-16 12:18:20 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.BUCKET_BY_BC.fork0.split 2019-10-16 12:18:26 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.BUCKET_BY_BC 2019-10-16 12:18:31 [runtime] 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ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_BC.fork0.split 2019-10-16 12:28:57 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_BC 2019-10-16 12:28:59 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_BC.fork0.chnk00.main 2019-10-16 12:28:59 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_BC.fork0.chnk01.main 2019-10-16 12:29:00 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_BC.fork0.chnk02.main 2019-10-16 12:29:00 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_BC.fork0.chnk03.main 2019-10-16 12:29:01 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_BC.fork0.chnk04.main 2019-10-16 12:29:01 [runtime] (run:local) 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ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS.fork0.split 2019-10-16 12:49:18 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS 2019-10-16 12:49:22 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS.fork0.chnk00.main 2019-10-16 12:49:23 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS.fork0.chnk01.main 2019-10-16 12:49:23 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS.fork0.chnk02.main 2019-10-16 12:49:24 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS.fork0.chnk03.main 2019-10-16 12:49:24 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS.fork0.chnk04.main 2019-10-16 12:49:25 [runtime] (run:local) 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[runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk26.main 2019-10-16 13:13:05 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk27.main 2019-10-16 13:13:05 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk28.main 2019-10-16 13:13:06 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk29.main 2019-10-16 13:13:06 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk30.main 2019-10-16 13:13:06 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk31.main 2019-10-16 13:13:07 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk32.main 2019-10-16 13:13:07 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk33.main 2019-10-16 13:13:08 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk34.main 2019-10-16 13:13:08 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk35.main 2019-10-16 13:13:08 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk36.main 2019-10-16 13:13:09 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk37.main 2019-10-16 13:13:09 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk38.main 2019-10-16 13:13:10 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk39.main 2019-10-16 13:13:10 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk40.main 2019-10-16 13:13:10 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk41.main 2019-10-16 13:13:11 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk42.main 2019-10-16 13:13:11 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk43.main 2019-10-16 13:13:12 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk44.main 2019-10-16 13:13:12 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk45.main 2019-10-16 13:13:13 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk46.main 2019-10-16 13:13:13 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk47.main 2019-10-16 13:13:14 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk48.main 2019-10-16 13:13:19 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.ANALYZER_PREFLIGHT 2019-10-16 13:13:21 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX 2019-10-16 13:13:22 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX.fork0.split 2019-10-16 13:15:28 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX 2019-10-16 13:15:29 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX.fork0.join 2019-10-16 13:15:43 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX 2019-10-16 13:15:44 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA 2019-10-16 13:15:45 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA.fork0.split 2019-10-16 13:15:49 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_FBPCA 2019-10-16 13:15:49 [runtime] (disabled) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_FBPCA 2019-10-16 13:15:49 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_MULTIGENOME_ANALYSIS 2019-10-16 13:15:49 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_MULTIGENOME_ANALYSIS.fork0.split 2019-10-16 13:15:50 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CORRECT_CHEMISTRY_BATCH 2019-10-16 13:15:51 [runtime] (disabled) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CORRECT_CHEMISTRY_BATCH 2019-10-16 13:15:51 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA 2019-10-16 13:15:52 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA.fork0.chnk0.main 2019-10-16 13:15:54 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_MULTIGENOME_ANALYSIS 2019-10-16 13:15:55 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_MULTIGENOME_ANALYSIS.fork0.join 2019-10-16 13:16:00 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_MULTIGENOME_ANALYSIS 2019-10-16 13:16:07 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA 2019-10-16 13:16:08 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA.fork0.join 2019-10-16 13:16:16 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA 2019-10-16 13:16:18 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT 2019-10-16 13:16:20 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT.fork0.chnk0.main 2019-10-16 13:16:21 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES 2019-10-16 13:16:23 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.join 2019-10-16 13:16:26 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT 2019-10-16 13:16:30 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE 2019-10-16 13:16:31 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE.fork0.split 2019-10-16 13:16:31 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP 2019-10-16 13:16:31 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP.fork0.split 2019-10-16 13:16:32 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS 2019-10-16 13:16:32 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.split 2019-10-16 13:16:32 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING 2019-10-16 13:16:33 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING.fork0.split 2019-10-16 13:16:36 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE 2019-10-16 13:16:37 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE.fork0.chnk0.main 2019-10-16 13:16:38 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS 2019-10-16 13:16:40 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.chnk0.main 2019-10-16 13:16:41 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.chnk1.main 2019-10-16 13:16:41 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.chnk2.main 2019-10-16 13:16:42 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.chnk3.main 2019-10-16 13:16:42 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.chnk4.main 2019-10-16 13:16:43 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.chnk5.main 2019-10-16 13:16:44 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.chnk6.main 2019-10-16 13:16:45 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.chnk7.main 2019-10-16 13:16:46 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.chnk8.main 2019-10-16 13:16:54 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP 2019-10-16 13:16:55 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP.fork0.chnk0.main 2019-10-16 13:16:55 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING 2019-10-16 13:16:56 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING.fork0.chnk0.main 2019-10-16 13:16:59 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS 2019-10-16 13:16:59 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.join 2019-10-16 13:17:00 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE 2019-10-16 13:17:00 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE.fork0.join 2019-10-16 13:17:03 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING 2019-10-16 13:17:04 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING.fork0.join 2019-10-16 13:17:07 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE 2019-10-16 13:17:08 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS 2019-10-16 13:17:19 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING 2019-10-16 13:17:20 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS 2019-10-16 13:17:21 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS.fork0.split 2019-10-16 13:17:24 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS 2019-10-16 13:17:25 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS.fork0.chnk0.main 2019-10-16 13:17:29 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS 2019-10-16 13:17:30 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS.fork0.join 2019-10-16 13:17:30 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP 2019-10-16 13:17:31 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP.fork0.join 2019-10-16 13:17:37 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP 2019-10-16 13:17:46 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS 2019-10-16 13:17:47 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.COMBINE_CLUSTERING 2019-10-16 13:17:48 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.COMBINE_CLUSTERING.fork0.chnk0.main 2019-10-16 13:17:55 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.COMBINE_CLUSTERING 2019-10-16 13:17:59 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION 2019-10-16 13:17:59 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.split 2019-10-16 13:18:03 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION 2019-10-16 13:18:05 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk00.main 2019-10-16 13:18:05 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk01.main 2019-10-16 13:18:06 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk02.main 2019-10-16 13:18:07 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk03.main 2019-10-16 13:18:07 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk04.main 2019-10-16 13:18:08 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk05.main 2019-10-16 13:18:09 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk06.main 2019-10-16 13:18:09 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk07.main 2019-10-16 13:18:10 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk08.main 2019-10-16 13:18:10 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk09.main 2019-10-16 13:18:15 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES 2019-10-16 13:18:20 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUBSAMPLE_READS 2019-10-16 13:18:20 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUBSAMPLE_READS.fork0.split 2019-10-16 13:18:38 [runtime] (update) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS.fork0 join_running 2019-10-16 13:19:14 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUBSAMPLE_READS 2019-10-16 13:19:14 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUBSAMPLE_READS.fork0.chnk0.main 2019-10-16 13:20:06 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION 2019-10-16 13:20:07 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.join 2019-10-16 13:20:20 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION 2019-10-16 13:20:23 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS 2019-10-16 13:20:23 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS.fork0.split 2019-10-16 13:20:26 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS 2019-10-16 13:20:27 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS.fork0.chnk0.main 2019-10-16 13:20:44 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS 2019-10-16 13:20:45 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS.fork0.join 2019-10-16 13:21:01 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS 2019-10-16 13:22:31 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUBSAMPLE_READS 2019-10-16 13:22:31 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUBSAMPLE_READS.fork0.join 2019-10-16 13:22:36 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUBSAMPLE_READS 2019-10-16 13:22:37 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS 2019-10-16 13:22:37 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS.fork0.split 2019-10-16 13:22:41 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS 2019-10-16 13:22:41 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS.fork0.chnk0.main 2019-10-16 13:22:45 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS 2019-10-16 13:22:46 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS.fork0.join 2019-10-16 13:22:52 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS 2019-10-16 13:22:57 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.CALL_PROTOSPACERS 2019-10-16 13:22:57 [runtime] (disabled) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.CALL_PROTOSPACERS 2019-10-16 13:22:58 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SUMMARIZE_REPORTS 2019-10-16 13:23:00 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SUMMARIZE_REPORTS.fork0.chnk0.main 2019-10-16 13:23:00 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER._PERTURBATIONS_BY_FEATURE 2019-10-16 13:23:00 [runtime] (disabled) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER._PERTURBATIONS_BY_FEATURE 2019-10-16 13:23:00 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER._PERTURBATIONS_BY_TARGET 2019-10-16 13:23:02 [runtime] (disabled) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER._PERTURBATIONS_BY_TARGET 2019-10-16 13:23:02 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.SUMMARIZE_CRISPR_ANALYSIS 2019-10-16 13:23:03 [runtime] (disabled) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.SUMMARIZE_CRISPR_ANALYSIS 2019-10-16 13:23:04 [runtime] (disabled) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER 2019-10-16 13:23:09 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SUMMARIZE_REPORTS 2019-10-16 13:23:14 [runtime] (ready) ID.Nash_2_run.SC_RNA_COUNTER_CS.CLOUPE_PREPROCESS 2019-10-16 13:23:14 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.CLOUPE_PREPROCESS.fork0.split 2019-10-16 13:23:19 [runtime] (split_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.CLOUPE_PREPROCESS 2019-10-16 13:23:19 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.CLOUPE_PREPROCESS.fork0.chnk0.main 2019-10-16 13:23:38 [runtime] (chunks_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.CLOUPE_PREPROCESS 2019-10-16 13:23:39 [runtime] (run:local) ID.Nash_2_run.SC_RNA_COUNTER_CS.CLOUPE_PREPROCESS.fork0.join 2019-10-16 13:23:44 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.CLOUPE_PREPROCESS 2019-10-16 13:24:37 [runtime] (update) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS.fork0 join_running 2019-10-16 13:30:41 [runtime] (update) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS.fork0 join_running 2019-10-16 13:33:08 [runtime] (join_complete) ID.Nash_2_run.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS Outputs: - Run summary HTML: /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/NASH2/Nash_2_run/outs/web_summary.html - Run summary CSV: /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/NASH2/Nash_2_run/outs/metrics_summary.csv - BAM: /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/NASH2/Nash_2_run/outs/possorted_genome_bam.bam - BAM index: /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/NASH2/Nash_2_run/outs/possorted_genome_bam.bam.bai - Filtered feature-barcode matrices MEX: /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/NASH2/Nash_2_run/outs/filtered_feature_bc_matrix - Filtered feature-barcode matrices HDF5: /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/NASH2/Nash_2_run/outs/filtered_feature_bc_matrix.h5 - Unfiltered feature-barcode matrices MEX: /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/NASH2/Nash_2_run/outs/raw_feature_bc_matrix - Unfiltered feature-barcode matrices HDF5: /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/NASH2/Nash_2_run/outs/raw_feature_bc_matrix.h5 - Secondary analysis output CSV: /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/NASH2/Nash_2_run/outs/analysis - Per-molecule read information: /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/NASH2/Nash_2_run/outs/molecule_info.h5 - CRISPR-specific analysis: null - Loupe Cell Browser file: /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/NASH2/Nash_2_run/outs/cloupe.cloupe - Feature Reference: null Waiting 6 seconds for UI to do final refresh. Pipestance completed successfully! 2019-10-16 13:33:32 Shutting down. Saving pipestance info to "Nash_2_run/Nash_2_run.mri.tgz" Finished .............. Wed Oct 16 13:34:27 EDT 2019