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Starting on       : Sun Sep 15 09:41:37 EDT 2019
Running on node   : scc-wj2
Current job ID    : 9368097
Current job name  : dropseq_10X_G171C_premRNA_mm10_UseThis
Task index number : 
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/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.
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Martian Runtime - '3.1.0-v3.2.3'
Serving UI at http://scc-wj2:39819?auth=f-g5CcX1InWEZIQnUuDLshGGjkLZnA4zouuAZl0vt9Q

Running preflight checks (please wait)...
2019-09-15 09:41:43 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF
2019-09-15 09:41:44 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF.fork0.chnk0.main
2019-09-15 09:41:55 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.EXPAND_SAMPLE_DEF
Checking sample info...
Checking FASTQ folder...
Checking libraries...
Checking reference...
Checking reference_path (/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm10_ensmbl/mm10_premrna_usethis) 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.

2019-09-15 09:42:06 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.DISABLE_FEATURE_STAGES
2019-09-15 09:42:06 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.DISABLE_FEATURE_STAGES.fork0.chnk0.main
2019-09-15 09:42:06 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR.DETECT_CHEMISTRY
2019-09-15 09:42:08 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR.DETECT_CHEMISTRY.fork0.chnk0.main
2019-09-15 09:42:08 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION
2019-09-15 09:42:10 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION.fork0.chnk0.main
2019-09-15 09:42:11 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.DISABLE_FEATURE_STAGES
2019-09-15 09:42:14 [runtime] (progress)        ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR.DETECT_CHEMISTRY.fork0.chnk0: Building transcriptome...
2019-09-15 09:42:16 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION
2019-09-15 09:43:44 [runtime] (progress)        ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR.DETECT_CHEMISTRY.fork0.chnk0: Building kmer index...
2019-09-15 09:49:08 [runtime] (progress)        ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR.DETECT_CHEMISTRY.fork0.chnk0: Mapping reads...
2019-09-15 09:49:30 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHEMISTRY_DETECTOR.DETECT_CHEMISTRY
2019-09-15 09:49:32 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS
2019-09-15 09:49:33 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS.fork0.chnk0.main
2019-09-15 09:49:36 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SETUP_CHUNKS
2019-09-15 09:49:37 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHECK_BARCODES_COMPATIBILITY
2019-09-15 09:49:38 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHECK_BARCODES_COMPATIBILITY.fork0.split
2019-09-15 09:49:38 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS
2019-09-15 09:49:38 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS.fork0.split
2019-09-15 09:49:41 [runtime] (split_complete)  ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS
2019-09-15 09:49:41 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS.fork0.chnk0.main
2019-09-15 09:49:42 [runtime] (split_complete)  ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHECK_BARCODES_COMPATIBILITY
2019-09-15 09:49:42 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHECK_BARCODES_COMPATIBILITY.fork0.join
2019-09-15 09:49:58 [runtime] (join_complete)   ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.CHECK_BARCODES_COMPATIBILITY
2019-09-15 09:55:48 [runtime] (update)          ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS.fork0 chunks_running
2019-09-15 10:01:54 [runtime] (update)          ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS.fork0 chunks_running
2019-09-15 10:07:56 [runtime] (update)          ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS.fork0 chunks_running
2019-09-15 10:14:01 [runtime] (update)          ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS.fork0 chunks_running
2019-09-15 10:19:45 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS
2019-09-15 10:19:45 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS.fork0.join
2019-09-15 10:19:47 [runtime] (join_complete)   ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.CHUNK_READS
2019-09-15 10:19:48 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS
2019-09-15 10:19:49 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.split
2019-09-15 10:19:54 [runtime] (split_complete)  ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS
2019-09-15 10:20:01 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk00.main
2019-09-15 10:20:01 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk01.main
2019-09-15 10:20:01 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk02.main
2019-09-15 10:20:02 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk03.main
2019-09-15 10:20:02 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk04.main
2019-09-15 10:20:03 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk05.main
2019-09-15 10:20:04 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk06.main
2019-09-15 10:20:04 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk07.main
2019-09-15 10:20:07 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk08.main
2019-09-15 10:20:08 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk09.main
2019-09-15 10:20:08 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk10.main
2019-09-15 10:20:09 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk11.main
2019-09-15 10:20:09 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk12.main
2019-09-15 10:20:10 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk13.main
2019-09-15 10:20:10 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk14.main
2019-09-15 10:20:11 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk15.main
2019-09-15 10:20:11 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk16.main
2019-09-15 10:20:11 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk17.main
2019-09-15 10:20:12 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk18.main
2019-09-15 10:20:12 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk19.main
2019-09-15 10:20:13 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk20.main
2019-09-15 10:20:13 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk21.main
2019-09-15 10:20:13 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk22.main
2019-09-15 10:20:14 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk23.main
2019-09-15 10:20:14 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk24.main
2019-09-15 10:20:15 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk25.main
2019-09-15 10:20:15 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk26.main
2019-09-15 10:20:16 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk27.main
2019-09-15 10:20:16 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk28.main
2019-09-15 10:20:19 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk29.main
2019-09-15 10:20:19 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk30.main
2019-09-15 10:20:20 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk31.main
2019-09-15 10:20:20 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk32.main
2019-09-15 10:20:20 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk33.main
2019-09-15 10:20:21 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk34.main
2019-09-15 10:20:21 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk35.main
2019-09-15 10:20:21 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk36.main
2019-09-15 10:20:22 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk37.main
2019-09-15 10:20:22 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk38.main
2019-09-15 10:20:23 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk39.main
2019-09-15 10:20:23 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk40.main
2019-09-15 10:20:23 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk41.main
2019-09-15 10:20:25 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk42.main
2019-09-15 10:20:25 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk43.main
2019-09-15 10:20:25 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.chnk44.main
2019-09-15 10:26:07 [runtime] (update)          ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0 chunks running (0/45 completed)
2019-09-15 10:31:17 [runtime] (update)          ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0 chunks running (28/45 completed)
2019-09-15 10:36:25 [runtime] (update)          ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0 chunks running (32/45 completed)
2019-09-15 10:37:23 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS
2019-09-15 10:37:24 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS.fork0.join
2019-09-15 10:38:47 [runtime] (join_complete)   ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.EXTRACT_READS
2019-09-15 10:38:57 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS
2019-09-15 10:38:57 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS.fork0.split
2019-09-15 10:39:00 [runtime] (split_complete)  ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS
2019-09-15 10:39:05 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS.fork0.chnk00.main
2019-09-15 10:39:05 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS.fork0.chnk01.main
2019-09-15 10:39:06 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS.fork0.chnk02.main
2019-09-15 10:39:08 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_READ_REPORTS.fork0.chnk03.main
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2019-09-15 12:59:36 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.MARK_DUPLICATES.fork0.chnk49.main
2019-09-15 12:59:36 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.MARK_DUPLICATES.fork0.chnk50.main
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2019-09-15 12:59:37 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.MARK_DUPLICATES.fork0.chnk53.main
2019-09-15 13:05:59 [runtime] (update)          ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.MARK_DUPLICATES.fork0 chunks running (29/54 completed)
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2019-09-15 13:08:11 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS
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2019-09-15 13:08:12 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.COUNT_GENES
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2019-09-15 13:51:05 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk44.main
2019-09-15 13:51:05 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk45.main
2019-09-15 13:51:07 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk46.main
2019-09-15 13:51:07 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk47.main
2019-09-15 13:51:08 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk48.main
2019-09-15 13:51:08 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk49.main
2019-09-15 13:51:08 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk50.main
2019-09-15 13:51:08 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk51.main
2019-09-15 13:51:09 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk52.main
2019-09-15 13:51:09 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.chnk53.main
2019-09-15 13:51:12 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.ANALYZER_PREFLIGHT
2019-09-15 13:51:13 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX
2019-09-15 13:51:14 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX.fork0.split
2019-09-15 13:52:09 [runtime] (update)          ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS.fork0 join_running
2019-09-15 13:55:15 [runtime] (split_complete)  ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX
2019-09-15 13:55:16 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX.fork0.join
2019-09-15 13:55:26 [runtime] (join_complete)   ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.PREPROCESS_MATRIX
2019-09-15 13:55:28 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_MULTIGENOME_ANALYSIS
2019-09-15 13:55:28 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_MULTIGENOME_ANALYSIS.fork0.split
2019-09-15 13:55:29 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_FBPCA
2019-09-15 13:55:29 [runtime] (disabled)        ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_FBPCA
2019-09-15 13:55:29 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA
2019-09-15 13:55:30 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA.fork0.split
2019-09-15 13:55:31 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CORRECT_CHEMISTRY_BATCH
2019-09-15 13:55:32 [runtime] (disabled)        ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CORRECT_CHEMISTRY_BATCH
2019-09-15 13:55:33 [runtime] (split_complete)  ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_MULTIGENOME_ANALYSIS
2019-09-15 13:55:34 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_MULTIGENOME_ANALYSIS.fork0.join
2019-09-15 13:55:34 [runtime] (split_complete)  ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA
2019-09-15 13:55:35 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA.fork0.chnk0.main
2019-09-15 13:55:38 [runtime] (join_complete)   ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_MULTIGENOME_ANALYSIS
2019-09-15 13:55:45 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA
2019-09-15 13:55:47 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA.fork0.join
2019-09-15 13:55:56 [runtime] (join_complete)   ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_PCA
2019-09-15 13:55:57 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT
2019-09-15 13:55:58 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT.fork0.chnk0.main
2019-09-15 13:56:05 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.CHOOSE_DIMENSION_REDUCTION_OUTPUT
2019-09-15 13:56:06 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE
2019-09-15 13:56:07 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE.fork0.split
2019-09-15 13:56:10 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING
2019-09-15 13:56:10 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING.fork0.split
2019-09-15 13:56:10 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP
2019-09-15 13:56:11 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP.fork0.split
2019-09-15 13:56:11 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS
2019-09-15 13:56:11 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.split
2019-09-15 13:56:13 [runtime] (split_complete)  ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE
2019-09-15 13:56:14 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE.fork0.chnk0.main
2019-09-15 13:56:17 [runtime] (split_complete)  ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING
2019-09-15 13:56:17 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING.fork0.chnk0.main
2019-09-15 13:56:18 [runtime] (split_complete)  ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS
2019-09-15 13:56:20 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.chnk0.main
2019-09-15 13:56:21 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.chnk1.main
2019-09-15 13:56:22 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.chnk2.main
2019-09-15 13:56:23 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.chnk3.main
2019-09-15 13:56:25 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.chnk4.main
2019-09-15 13:56:26 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.chnk5.main
2019-09-15 13:56:26 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.chnk6.main
2019-09-15 13:56:27 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.chnk7.main
2019-09-15 13:56:28 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.chnk8.main
2019-09-15 13:56:38 [runtime] (split_complete)  ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP
2019-09-15 13:56:38 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP.fork0.chnk0.main
2019-09-15 13:56:39 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE
2019-09-15 13:56:40 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE.fork0.join
2019-09-15 13:56:40 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING
2019-09-15 13:56:40 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING.fork0.join
2019-09-15 13:56:43 [runtime] (update)          ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0 chunks running (49/54 completed)
2019-09-15 13:56:43 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS
2019-09-15 13:56:44 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS.fork0.join
2019-09-15 13:56:46 [runtime] (join_complete)   ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_TSNE
2019-09-15 13:56:50 [runtime] (join_complete)   ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_GRAPH_CLUSTERING
2019-09-15 13:56:51 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS
2019-09-15 13:56:51 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS.fork0.split
2019-09-15 13:56:52 [runtime] (join_complete)   ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_KMEANS
2019-09-15 13:56:58 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP
2019-09-15 13:56:59 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP.fork0.join
2019-09-15 13:56:59 [runtime] (split_complete)  ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS
2019-09-15 13:57:00 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS.fork0.chnk0.main
2019-09-15 13:57:06 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS
2019-09-15 13:57:06 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS.fork0.join
2019-09-15 13:57:07 [runtime] (join_complete)   ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_UMAP
2019-09-15 13:57:08 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES
2019-09-15 13:57:09 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES.fork0.join
2019-09-15 13:57:18 [runtime] (join_complete)   ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.MERGE_CLUSTERS
2019-09-15 13:57:19 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.COMBINE_CLUSTERING
2019-09-15 13:57:20 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.COMBINE_CLUSTERING.fork0.chnk0.main
2019-09-15 13:57:28 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.COMBINE_CLUSTERING
2019-09-15 13:57:31 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION
2019-09-15 13:57:32 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.split
2019-09-15 13:57:35 [runtime] (split_complete)  ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION
2019-09-15 13:57:37 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk00.main
2019-09-15 13:57:37 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk01.main
2019-09-15 13:57:38 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk02.main
2019-09-15 13:57:38 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk03.main
2019-09-15 13:57:39 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk04.main
2019-09-15 13:57:40 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk05.main
2019-09-15 13:57:40 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk06.main
2019-09-15 13:57:42 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk07.main
2019-09-15 13:57:44 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk08.main
2019-09-15 13:57:44 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.chnk09.main
2019-09-15 13:58:08 [runtime] (update)          ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS.fork0 join_running
2019-09-15 13:58:56 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION
2019-09-15 13:58:57 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION.fork0.join
2019-09-15 13:59:08 [runtime] (join_complete)   ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.RUN_DIFFERENTIAL_EXPRESSION
2019-09-15 13:59:11 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS
2019-09-15 13:59:11 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS.fork0.split
2019-09-15 13:59:15 [runtime] (split_complete)  ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS
2019-09-15 13:59:15 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS.fork0.chnk0.main
2019-09-15 13:59:31 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS
2019-09-15 13:59:32 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS.fork0.join
2019-09-15 13:59:42 [runtime] (join_complete)   ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.REPORT_MOLECULES
2019-09-15 13:59:48 [runtime] (join_complete)   ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SC_RNA_ANALYZER.SUMMARIZE_ANALYSIS
2019-09-15 13:59:53 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUBSAMPLE_READS
2019-09-15 13:59:54 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUBSAMPLE_READS.fork0.split
2019-09-15 14:00:00 [runtime] (split_complete)  ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUBSAMPLE_READS
2019-09-15 14:00:00 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUBSAMPLE_READS.fork0.chnk0.main
2019-09-15 14:03:33 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUBSAMPLE_READS
2019-09-15 14:03:33 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUBSAMPLE_READS.fork0.join
2019-09-15 14:03:38 [runtime] (join_complete)   ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUBSAMPLE_READS
2019-09-15 14:03:39 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS
2019-09-15 14:03:39 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS.fork0.split
2019-09-15 14:03:43 [runtime] (split_complete)  ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS
2019-09-15 14:03:44 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS.fork0.chnk0.main
2019-09-15 14:03:48 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS
2019-09-15 14:03:48 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS.fork0.join
2019-09-15 14:03:53 [runtime] (join_complete)   ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SUMMARIZE_BASIC_REPORTS
2019-09-15 14:03:59 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.CALL_PROTOSPACERS
2019-09-15 14:04:00 [runtime] (disabled)        ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.CALL_PROTOSPACERS
2019-09-15 14:04:00 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER._PERTURBATIONS_BY_FEATURE
2019-09-15 14:04:01 [runtime] (disabled)        ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER._PERTURBATIONS_BY_FEATURE
2019-09-15 14:04:01 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SUMMARIZE_REPORTS
2019-09-15 14:04:02 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SUMMARIZE_REPORTS.fork0.chnk0.main
2019-09-15 14:04:02 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER._PERTURBATIONS_BY_TARGET
2019-09-15 14:04:03 [runtime] (disabled)        ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER._PERTURBATIONS_BY_TARGET
2019-09-15 14:04:03 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.SUMMARIZE_CRISPR_ANALYSIS
2019-09-15 14:04:04 [runtime] (disabled)        ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER.SUMMARIZE_CRISPR_ANALYSIS
2019-09-15 14:04:05 [runtime] (disabled)        ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._CRISPR_ANALYZER
2019-09-15 14:04:11 [runtime] (update)          ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS.fork0 join_running
2019-09-15 14:04:23 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER.SUMMARIZE_REPORTS
2019-09-15 14:04:29 [runtime] (ready)           ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.CLOUPE_PREPROCESS
2019-09-15 14:04:29 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.CLOUPE_PREPROCESS.fork0.split
2019-09-15 14:04:34 [runtime] (split_complete)  ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.CLOUPE_PREPROCESS
2019-09-15 14:04:34 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.CLOUPE_PREPROCESS.fork0.chnk0.main
2019-09-15 14:04:49 [runtime] (chunks_complete) ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.CLOUPE_PREPROCESS
2019-09-15 14:04:50 [runtime] (run:local)       ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.CLOUPE_PREPROCESS.fork0.join
2019-09-15 14:04:56 [runtime] (join_complete)   ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.CLOUPE_PREPROCESS
2019-09-15 14:10:11 [runtime] (update)          ID.10X_G171C_mm9_premRNA_UseThis.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.SORT_BY_POS.fork0 join_running
2019-09-15 14:15:01 [runtime] (join_complete)   ID.10X_G171C_mm9_premRNA_UseThis.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/G171/10X_G171C_mm9_premRNA_UseThis/outs/web_summary.html
- Run summary CSV:                          /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_mm9_premRNA_UseThis/outs/metrics_summary.csv
- BAM:                                      /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_mm9_premRNA_UseThis/outs/possorted_genome_bam.bam
- BAM index:                                /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_mm9_premRNA_UseThis/outs/possorted_genome_bam.bam.bai
- Filtered feature-barcode matrices MEX:    /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_mm9_premRNA_UseThis/outs/filtered_feature_bc_matrix
- Filtered feature-barcode matrices HDF5:   /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_mm9_premRNA_UseThis/outs/filtered_feature_bc_matrix.h5
- Unfiltered feature-barcode matrices MEX:  /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_mm9_premRNA_UseThis/outs/raw_feature_bc_matrix
- Unfiltered feature-barcode matrices HDF5: /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_mm9_premRNA_UseThis/outs/raw_feature_bc_matrix.h5
- Secondary analysis output CSV:            /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_mm9_premRNA_UseThis/outs/analysis
- Per-molecule read information:            /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_mm9_premRNA_UseThis/outs/molecule_info.h5
- CRISPR-specific analysis:                 null
- Loupe Cell Browser file:                  /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/10X_G171C_mm9_premRNA_UseThis/outs/cloupe.cloupe
- Feature Reference:                        null

Waiting 6 seconds for UI to do final refresh.
Pipestance completed successfully!

2019-09-15 14:15:22 Shutting down.
Saving pipestance info to "10X_G171C_mm9_premRNA_UseThis/10X_G171C_mm9_premRNA_UseThis.mri.tgz"
Finished  .............. Sun Sep 15 14:16:21 EDT 2019