2021-09-05 08:19:24,172 INFO BenchmarkPipeline --- START PROCESSING 'SRR6024961-SRR6024962-SRR6024963-SRR6024964' --- 2021-09-05 08:19:24,205 INFO Sra2FastQ Accession: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6024961.sra 2021-09-05 08:19:24,206 INFO Sra2FastQ Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__ 2021-09-05 08:19:24,227 DEBUG SimpleSubprocess fastq-dump --split-3 -O /tmp/tmpu62t41se "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6024961.sra" 2021-09-05 08:35:52,608 INFO SimpleSubprocess Sra2FastQ - 0:16:28 2021-09-05 08:35:52,650 DEBUG SimpleSubprocess gzip /tmp/tmpu62t41se/* 2021-09-05 10:03:14,193 INFO SimpleSubprocess GZipFastQ - 1:27:21 2021-09-05 10:03:14,408 DEBUG SimpleSubprocess mkdir -p "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/fastq"; mv /tmp/tmpu62t41se/SRR6024961_2.fastq.gz /tmp/tmpu62t41se/SRR6024961_R2.fastq.gz; mv /tmp/tmpu62t41se/SRR6024961_1.fastq.gz /tmp/tmpu62t41se/SRR6024961_R1.fastq.gz; cp /tmp/tmpu62t41se/*_R*.fastq* "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/fastq" 2021-09-05 10:04:17,632 INFO SimpleSubprocess CopyFiles - 0:01:03 2021-09-05 10:04:19,394 INFO Sra2FastQ Accession: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6024962.sra 2021-09-05 10:04:19,394 INFO Sra2FastQ Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__ 2021-09-05 10:04:19,394 DEBUG SimpleSubprocess fastq-dump --split-3 -O /tmp/tmpj5d4sbuc "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6024962.sra" 2021-09-05 10:21:32,741 INFO SimpleSubprocess Sra2FastQ - 0:17:13 2021-09-05 10:21:32,762 DEBUG SimpleSubprocess gzip /tmp/tmpj5d4sbuc/* 2021-09-05 11:41:30,037 INFO SimpleSubprocess GZipFastQ - 1:19:57 2021-09-05 11:41:30,061 DEBUG SimpleSubprocess mkdir -p "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/fastq"; mv /tmp/tmpj5d4sbuc/SRR6024962_1.fastq.gz /tmp/tmpj5d4sbuc/SRR6024962_R1.fastq.gz; mv /tmp/tmpj5d4sbuc/SRR6024962_2.fastq.gz /tmp/tmpj5d4sbuc/SRR6024962_R2.fastq.gz; cp /tmp/tmpj5d4sbuc/*_R*.fastq* "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/fastq" 2021-09-05 11:42:39,452 INFO SimpleSubprocess CopyFiles - 0:01:09 2021-09-05 11:42:41,093 INFO Sra2FastQ Accession: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6024963.sra 2021-09-05 11:42:41,093 INFO Sra2FastQ Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__ 2021-09-05 11:42:41,146 DEBUG SimpleSubprocess fastq-dump --split-3 -O /tmp/tmplb6wf71g "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6024963.sra" 2021-09-05 11:59:07,053 INFO SimpleSubprocess Sra2FastQ - 0:16:25 2021-09-05 11:59:07,072 DEBUG SimpleSubprocess gzip /tmp/tmplb6wf71g/* 2021-09-05 12:37:43,266 INFO SimpleSubprocess GZipFastQ - 0:38:36 2021-09-05 12:37:43,270 DEBUG SimpleSubprocess mkdir -p "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/fastq"; mv /tmp/tmplb6wf71g/SRR6024963_1.fastq.gz /tmp/tmplb6wf71g/SRR6024963_R1.fastq.gz; mv /tmp/tmplb6wf71g/SRR6024963_2.fastq.gz /tmp/tmplb6wf71g/SRR6024963_R2.fastq.gz; cp /tmp/tmplb6wf71g/*_R*.fastq* "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/fastq" 2021-09-05 12:37:50,426 INFO SimpleSubprocess CopyFiles - 0:00:07 2021-09-05 12:37:51,390 INFO Sra2FastQ Accession: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6024964.sra 2021-09-05 12:37:51,390 INFO Sra2FastQ Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__ 2021-09-05 12:37:51,391 DEBUG SimpleSubprocess fastq-dump --split-3 -O /tmp/tmpc7lrv7sf "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6024964.sra" 2021-09-05 12:56:16,764 INFO SimpleSubprocess Sra2FastQ - 0:18:25 2021-09-05 12:56:16,780 DEBUG SimpleSubprocess gzip /tmp/tmpc7lrv7sf/* 2021-09-05 13:39:55,104 INFO SimpleSubprocess GZipFastQ - 0:43:38 2021-09-05 13:39:55,104 DEBUG SimpleSubprocess mkdir -p "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/fastq"; mv /tmp/tmpc7lrv7sf/SRR6024964_2.fastq.gz /tmp/tmpc7lrv7sf/SRR6024964_R2.fastq.gz; mv /tmp/tmpc7lrv7sf/SRR6024964_1.fastq.gz /tmp/tmpc7lrv7sf/SRR6024964_R1.fastq.gz; cp /tmp/tmpc7lrv7sf/*_R*.fastq* "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/fastq" 2021-09-05 13:40:03,651 INFO SimpleSubprocess CopyFiles - 0:00:08 2021-09-05 13:40:04,817 INFO Juicer Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__ 2021-09-05 13:40:04,817 INFO Juicer Genome assembly: mm10 2021-09-05 13:40:04,817 INFO Juicer Genome FASTA path: /Data/DataBases/mm10/mm10_canonic.fa 2021-09-05 13:40:04,817 INFO Juicer Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-05 13:40:04,817 INFO Juicer Enzyme: DpnII 2021-09-05 13:40:04,817 INFO Juicer Restriction sites path: /Data/UserData/FairWind/Ya.Cloud/core/pipeline/data/restriction_sites/RestrictionSites_DpnII_mm10.txt 2021-09-05 13:40:04,817 INFO Juicer Threads: 10 2021-09-05 13:40:04,818 DEBUG SimpleSubprocess rm -rf "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/splits" 2021-09-05 13:40:04,879 INFO SimpleSubprocess RemoveTrash - 0:00:00 2021-09-05 13:40:04,879 DEBUG SimpleSubprocess bash "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer/scripts/juicer.sh" -t 10 -D "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer" -g mm10 -z "/Data/DataBases/mm10/mm10_canonic.fa" -p "/Data/DataBases/mm10/mm10_canonic.chrom.sizes" -s DpnII -y "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/data/restriction_sites/RestrictionSites_DpnII_mm10.txt" -d "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__" 2021-09-06 07:45:05,953 INFO SimpleSubprocess Juicer - 18:05:01 2021-09-06 07:45:06,103 INFO Juicer Using /Data/UserData/FairWind/Ya.Cloud/core/pipeline/data/restriction_sites/RestrictionSites_DpnII_mm10.txt as site file (-: Looking for fastq files...fastq files exist (-: Aligning files matching /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/fastq/*_R*.fastq* to genome mm10 with site file /Data/UserData/FairWind/Ya.Cloud/core/pipeline/data/restriction_sites/RestrictionSites_DpnII_mm10.txt (-: Created /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/splits and /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned. bwa mem -SP5M -t 10 /Data/DataBases/mm10/mm10_canonic.fa /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/splits/SRR6024961_R1.fastq.gz /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/splits/SRR6024961_R2.fastq.gz > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/splits/SRR6024961.fastq.gz.sam (-: Align of /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/splits/SRR6024961.fastq.gz.sam done successfully bwa mem -SP5M -t 10 /Data/DataBases/mm10/mm10_canonic.fa /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/splits/SRR6024962_R1.fastq.gz /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/splits/SRR6024962_R2.fastq.gz > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/splits/SRR6024962.fastq.gz.sam (-: Align of /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/splits/SRR6024962.fastq.gz.sam done successfully bwa mem -SP5M -t 10 /Data/DataBases/mm10/mm10_canonic.fa /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/splits/SRR6024963_R1.fastq.gz /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/splits/SRR6024963_R2.fastq.gz > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/splits/SRR6024963.fastq.gz.sam (-: Align of /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/splits/SRR6024963.fastq.gz.sam done successfully bwa mem -SP5M -t 10 /Data/DataBases/mm10/mm10_canonic.fa /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/splits/SRR6024964_R1.fastq.gz /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/splits/SRR6024964_R2.fastq.gz > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/splits/SRR6024964.fastq.gz.sam (-: Align of /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/splits/SRR6024964.fastq.gz.sam done successfully (-: Finished sorting all sorted files into a single merge. WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance. WARN [2021-09-06T06:19:09,443] [Globals.java:138] [main] Development mode is enabled Using 1 CPU thread(s) Not including fragment map Start preprocess Writing header Writing body ........................................................................................................................................................................................................................................ Writing footer Finished preprocess Calculating norms for zoom BP_2500000 Calculating norms for zoom BP_1000000 Calculating norms for zoom BP_500000 Calculating norms for zoom BP_250000 Calculating norms for zoom BP_100000 Calculating norms for zoom BP_50000 Calculating norms for zoom BP_25000 Calculating norms for zoom BP_10000 Calculating norms for zoom BP_5000 Calculating norms for zoom BP_1000 Finished writing norms WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance. WARN [2021-09-06T07:06:19,765] [Globals.java:138] [main] Development mode is enabled Using 1 CPU thread(s) Not including fragment map Start preprocess Writing header Writing body ........................................................................................................................................................................................................................................ Writing footer Finished preprocess Calculating norms for zoom BP_2500000 Calculating norms for zoom BP_1000000 Calculating norms for zoom BP_500000 Calculating norms for zoom BP_250000 Calculating norms for zoom BP_100000 Calculating norms for zoom BP_50000 Calculating norms for zoom BP_25000 Calculating norms for zoom BP_10000 Calculating norms for zoom BP_5000 Calculating norms for zoom BP_1000 Finished writing norms /Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer/scripts/common/juicer_tools is post-processing Hi-C for mm10 Data read from /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_30.hic. Motifs read from /Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer/references/motif ARROWHEAD: WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance. WARN [2021-09-06T07:45:04,958] [Globals.java:138] [main] Development mode is enabled Reading file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_30.hic Using 1 CPU thread(s) HiCCUPS: GPUs are not installed so HiCCUPs cannot be run (-: Postprocessing successfully completed, maps too sparse to annotate or GPUs unavailable (-: (-: Pipeline successfully completed (-: Run cleanup.sh to remove the splits directory Check /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned for results 2021-09-06 07:45:06,415 INFO MakeInterPairs Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/merged_nodups.txt 2021-09-06 07:45:06,422 INFO MakeInterPairs Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter.pairs.txt 2021-09-06 07:45:06,562 DEBUG SimpleSubprocess awk -F " " '{print $2 "\t" $3 "\t" $6 "\t" $7}' "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/merged_nodups.txt" > "/tmp/tmpv4y6wq4w/inter.pairs.txt" 2021-09-06 07:46:50,412 INFO SimpleSubprocess MakeInterPairs - 0:01:43 2021-09-06 07:46:50,413 DEBUG SimpleSubprocess cp "/tmp/tmpv4y6wq4w/inter.pairs.txt" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter.pairs.txt" 2021-09-06 07:46:53,073 INFO SimpleSubprocess CopyFiles - 0:00:02 2021-09-06 07:46:53,545 INFO Pairs2Cool Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter.pairs.txt 2021-09-06 07:46:53,545 INFO Pairs2Cool Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_5kb.cool 2021-09-06 07:46:53,545 INFO Pairs2Cool Genome assembly: mm10 2021-09-06 07:46:53,545 INFO Pairs2Cool Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-06 07:46:53,545 INFO Pairs2Cool Resolution [bp]: 5000 2021-09-06 07:46:53,545 DEBUG SimpleSubprocess cooler cload pairs -c1 1 -p1 2 -c2 3 -p2 4 --assembly mm10 "/Data/DataBases/mm10/mm10_canonic.chrom.sizes":5000 "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter.pairs.txt" "/tmp/tmp88s16bbj/inter_no_balanced.cool" 2021-09-06 07:49:27,635 INFO SimpleSubprocess MakeCool - 0:02:34 2021-09-06 07:49:27,636 DEBUG SimpleSubprocess cp "/tmp/tmp88s16bbj/inter_no_balanced.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_5kb.cool" 2021-09-06 07:49:27,690 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-06 07:49:27,697 INFO Pairs2Cool Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter.pairs.txt 2021-09-06 07:49:27,697 INFO Pairs2Cool Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_10kb.cool 2021-09-06 07:49:27,698 INFO Pairs2Cool Genome assembly: mm10 2021-09-06 07:49:27,698 INFO Pairs2Cool Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-06 07:49:27,698 INFO Pairs2Cool Resolution [bp]: 10000 2021-09-06 07:49:27,721 DEBUG SimpleSubprocess cooler cload pairs -c1 1 -p1 2 -c2 3 -p2 4 --assembly mm10 "/Data/DataBases/mm10/mm10_canonic.chrom.sizes":10000 "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter.pairs.txt" "/tmp/tmpdi9dp6vc/inter_no_balanced.cool" 2021-09-06 07:51:49,276 INFO SimpleSubprocess MakeCool - 0:02:21 2021-09-06 07:51:49,277 DEBUG SimpleSubprocess cp "/tmp/tmpdi9dp6vc/inter_no_balanced.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_10kb.cool" 2021-09-06 07:51:49,324 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-06 07:51:49,330 INFO Pairs2Cool Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter.pairs.txt 2021-09-06 07:51:49,330 INFO Pairs2Cool Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_20kb.cool 2021-09-06 07:51:49,331 INFO Pairs2Cool Genome assembly: mm10 2021-09-06 07:51:49,331 INFO Pairs2Cool Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-06 07:51:49,331 INFO Pairs2Cool Resolution [bp]: 20000 2021-09-06 07:51:49,331 DEBUG SimpleSubprocess cooler cload pairs -c1 1 -p1 2 -c2 3 -p2 4 --assembly mm10 "/Data/DataBases/mm10/mm10_canonic.chrom.sizes":20000 "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter.pairs.txt" "/tmp/tmpz2obr5de/inter_no_balanced.cool" 2021-09-06 07:54:06,676 INFO SimpleSubprocess MakeCool - 0:02:17 2021-09-06 07:54:06,676 DEBUG SimpleSubprocess cp "/tmp/tmpz2obr5de/inter_no_balanced.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_20kb.cool" 2021-09-06 07:54:06,722 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-06 07:54:06,727 INFO Pairs2Cool Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter.pairs.txt 2021-09-06 07:54:06,727 INFO Pairs2Cool Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_25kb.cool 2021-09-06 07:54:06,727 INFO Pairs2Cool Genome assembly: mm10 2021-09-06 07:54:06,727 INFO Pairs2Cool Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-06 07:54:06,728 INFO Pairs2Cool Resolution [bp]: 25000 2021-09-06 07:54:06,747 DEBUG SimpleSubprocess cooler cload pairs -c1 1 -p1 2 -c2 3 -p2 4 --assembly mm10 "/Data/DataBases/mm10/mm10_canonic.chrom.sizes":25000 "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter.pairs.txt" "/tmp/tmp490cia_b/inter_no_balanced.cool" 2021-09-06 07:56:22,494 INFO SimpleSubprocess MakeCool - 0:02:15 2021-09-06 07:56:22,495 DEBUG SimpleSubprocess cp "/tmp/tmp490cia_b/inter_no_balanced.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_25kb.cool" 2021-09-06 07:56:22,537 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-06 07:56:22,542 INFO Pairs2Cool Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter.pairs.txt 2021-09-06 07:56:22,542 INFO Pairs2Cool Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_50kb.cool 2021-09-06 07:56:22,542 INFO Pairs2Cool Genome assembly: mm10 2021-09-06 07:56:22,542 INFO Pairs2Cool Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-06 07:56:22,543 INFO Pairs2Cool Resolution [bp]: 50000 2021-09-06 07:56:22,562 DEBUG SimpleSubprocess cooler cload pairs -c1 1 -p1 2 -c2 3 -p2 4 --assembly mm10 "/Data/DataBases/mm10/mm10_canonic.chrom.sizes":50000 "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter.pairs.txt" "/tmp/tmpi2bv8cei/inter_no_balanced.cool" 2021-09-06 07:58:28,496 INFO SimpleSubprocess MakeCool - 0:02:05 2021-09-06 07:58:28,497 DEBUG SimpleSubprocess cp "/tmp/tmpi2bv8cei/inter_no_balanced.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_50kb.cool" 2021-09-06 07:58:28,531 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-06 07:58:28,537 INFO CTaleNormalize Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_5kb.cool 2021-09-06 07:58:28,537 INFO CTaleNormalize Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_5kb.cool 2021-09-06 07:58:28,537 INFO CTaleNormalize Capture: chr13:53,895,001-57,200,000 2021-09-06 07:58:28,538 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_5kb.cool" "/tmp/tmpjgo9n6le/inter.cool" 2021-09-06 07:58:28,596 INFO SimpleSubprocess TempFiles - 0:00:00 2021-09-06 07:58:28,596 DEBUG SimpleSubprocess ctale_normalize "/tmp/tmpjgo9n6le/inter.cool" "chr13:53,895,001-57,200,000" 2021-09-06 07:58:34,467 INFO SimpleSubprocess NormalizeCool - 0:00:05 2021-09-06 07:58:34,467 DEBUG SimpleSubprocess cp "/tmp/tmpjgo9n6le/inter.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_5kb.cool" 2021-09-06 07:58:34,526 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-06 07:58:34,533 INFO CTaleNormalize Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_10kb.cool 2021-09-06 07:58:34,534 INFO CTaleNormalize Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_10kb.cool 2021-09-06 07:58:34,534 INFO CTaleNormalize Capture: chr13:53,895,001-57,200,000 2021-09-06 07:58:34,534 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_10kb.cool" "/tmp/tmpu1k92nds/inter.cool" 2021-09-06 07:58:34,585 INFO SimpleSubprocess TempFiles - 0:00:00 2021-09-06 07:58:34,585 DEBUG SimpleSubprocess ctale_normalize "/tmp/tmpu1k92nds/inter.cool" "chr13:53,895,001-57,200,000" 2021-09-06 07:58:37,548 INFO SimpleSubprocess NormalizeCool - 0:00:02 2021-09-06 07:58:37,548 DEBUG SimpleSubprocess cp "/tmp/tmpu1k92nds/inter.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_10kb.cool" 2021-09-06 07:58:37,599 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-06 07:58:37,625 INFO CTaleNormalize Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_20kb.cool 2021-09-06 07:58:37,625 INFO CTaleNormalize Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_20kb.cool 2021-09-06 07:58:37,625 INFO CTaleNormalize Capture: chr13:53,895,001-57,200,000 2021-09-06 07:58:37,630 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_20kb.cool" "/tmp/tmp1azvh88s/inter.cool" 2021-09-06 07:58:37,674 INFO SimpleSubprocess TempFiles - 0:00:00 2021-09-06 07:58:37,675 DEBUG SimpleSubprocess ctale_normalize "/tmp/tmp1azvh88s/inter.cool" "chr13:53,895,001-57,200,000" 2021-09-06 07:58:39,758 INFO SimpleSubprocess NormalizeCool - 0:00:02 2021-09-06 07:58:39,758 DEBUG SimpleSubprocess cp "/tmp/tmp1azvh88s/inter.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_20kb.cool" 2021-09-06 07:58:39,836 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-06 07:58:39,859 INFO CTaleNormalize Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_25kb.cool 2021-09-06 07:58:39,859 INFO CTaleNormalize Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_25kb.cool 2021-09-06 07:58:39,859 INFO CTaleNormalize Capture: chr13:53,895,001-57,200,000 2021-09-06 07:58:39,860 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_25kb.cool" "/tmp/tmp2mwh6mdy/inter.cool" 2021-09-06 07:58:39,901 INFO SimpleSubprocess TempFiles - 0:00:00 2021-09-06 07:58:39,901 DEBUG SimpleSubprocess ctale_normalize "/tmp/tmp2mwh6mdy/inter.cool" "chr13:53,895,001-57,200,000" 2021-09-06 07:58:41,737 INFO SimpleSubprocess NormalizeCool - 0:00:01 2021-09-06 07:58:41,737 DEBUG SimpleSubprocess cp "/tmp/tmp2mwh6mdy/inter.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_25kb.cool" 2021-09-06 07:58:41,779 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-06 07:58:41,805 INFO CTaleNormalize Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_50kb.cool 2021-09-06 07:58:41,805 INFO CTaleNormalize Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_50kb.cool 2021-09-06 07:58:41,805 INFO CTaleNormalize Capture: chr13:53,895,001-57,200,000 2021-09-06 07:58:41,806 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_50kb.cool" "/tmp/tmp727r6_d7/inter.cool" 2021-09-06 07:58:41,839 INFO SimpleSubprocess TempFiles - 0:00:00 2021-09-06 07:58:41,839 DEBUG SimpleSubprocess ctale_normalize "/tmp/tmp727r6_d7/inter.cool" "chr13:53,895,001-57,200,000" 2021-09-06 07:58:43,182 INFO SimpleSubprocess NormalizeCool - 0:00:01 2021-09-06 07:58:43,183 DEBUG SimpleSubprocess cp "/tmp/tmp727r6_d7/inter.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_50kb.cool" 2021-09-06 07:58:43,216 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-06 07:58:43,223 DEBUG SimpleSubprocess echo > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/vector.txt 2021-09-06 07:58:43,229 INFO SimpleSubprocess MakeVector - 0:00:00 2021-09-06 07:58:43,242 INFO AddWeight Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_5kb.cool 2021-09-06 07:58:43,242 INFO AddWeight Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/vector.txt 2021-09-06 07:58:43,242 INFO AddWeight Chromosome: chr13 2021-09-06 07:58:43,242 INFO AddWeight Resolution [bp]: 5000 2021-09-06 07:58:44,999 INFO AddWeight AddWeight successfully finished 2021-09-06 07:58:44,999 INFO AddWeight Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_10kb.cool 2021-09-06 07:58:44,999 INFO AddWeight Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/vector.txt 2021-09-06 07:58:44,999 INFO AddWeight Chromosome: chr13 2021-09-06 07:58:45,000 INFO AddWeight Resolution [bp]: 10000 2021-09-06 07:58:45,053 INFO AddWeight AddWeight successfully finished 2021-09-06 07:58:45,053 INFO AddWeight Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_20kb.cool 2021-09-06 07:58:45,054 INFO AddWeight Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/vector.txt 2021-09-06 07:58:45,054 INFO AddWeight Chromosome: chr13 2021-09-06 07:58:45,054 INFO AddWeight Resolution [bp]: 20000 2021-09-06 07:58:45,088 INFO AddWeight AddWeight successfully finished 2021-09-06 07:58:45,088 INFO AddWeight Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_25kb.cool 2021-09-06 07:58:45,088 INFO AddWeight Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/vector.txt 2021-09-06 07:58:45,088 INFO AddWeight Chromosome: chr13 2021-09-06 07:58:45,088 INFO AddWeight Resolution [bp]: 25000 2021-09-06 07:58:45,120 INFO AddWeight AddWeight successfully finished 2021-09-06 07:58:45,120 INFO AddWeight Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_50kb.cool 2021-09-06 07:58:45,120 INFO AddWeight Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/vector.txt 2021-09-06 07:58:45,120 INFO AddWeight Chromosome: chr13 2021-09-06 07:58:45,120 INFO AddWeight Resolution [bp]: 50000 2021-09-06 07:58:45,143 INFO AddWeight AddWeight successfully finished 2021-09-06 07:58:45,146 INFO Vector2HiC Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter.hic 2021-09-06 07:58:45,146 INFO Vector2HiC Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_norm.hic 2021-09-06 07:58:45,146 INFO Vector2HiC Vector: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/vector.txt 2021-09-06 07:58:45,146 INFO Vector2HiC Threads: 10 2021-09-06 07:58:45,171 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter.hic" "/tmp/tmphhxmp5rm/inter.hic" 2021-09-06 07:58:45,536 INFO SimpleSubprocess TempFiles - 0:00:00 2021-09-06 07:58:45,536 INFO Vector2HiC Vector: vector c-tale_normalization chr13 5000 BP 2021-09-06 07:58:45,537 DEBUG SimpleSubprocess java -jar "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer/scripts/common/juicer_tools.jar" addNorm -j 10 "/tmp/tmphhxmp5rm/inter.hic" "/tmp/tmphhxmp5rm/vector.txt" 2021-09-06 07:58:50,464 INFO SimpleSubprocess NormalizeHiC - 0:00:04 2021-09-06 07:58:50,464 INFO Vector2HiC Vector: vector c-tale_normalization chr13 10000 BP 2021-09-06 07:58:50,465 DEBUG SimpleSubprocess java -jar "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer/scripts/common/juicer_tools.jar" addNorm -j 10 "/tmp/tmphhxmp5rm/inter.hic" "/tmp/tmphhxmp5rm/vector.txt" 2021-09-06 07:58:54,686 INFO SimpleSubprocess NormalizeHiC - 0:00:04 2021-09-06 07:58:54,686 INFO Vector2HiC Vector: vector c-tale_normalization chr13 20000 BP 2021-09-06 07:58:54,687 DEBUG SimpleSubprocess java -jar "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer/scripts/common/juicer_tools.jar" addNorm -j 10 "/tmp/tmphhxmp5rm/inter.hic" "/tmp/tmphhxmp5rm/vector.txt" 2021-09-06 07:58:58,277 INFO SimpleSubprocess NormalizeHiC - 0:00:03 2021-09-06 07:58:58,278 INFO Vector2HiC Vector: vector c-tale_normalization chr13 25000 BP 2021-09-06 07:58:58,278 DEBUG SimpleSubprocess java -jar "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer/scripts/common/juicer_tools.jar" addNorm -j 10 "/tmp/tmphhxmp5rm/inter.hic" "/tmp/tmphhxmp5rm/vector.txt" 2021-09-06 07:59:02,397 INFO SimpleSubprocess NormalizeHiC - 0:00:04 2021-09-06 07:59:02,397 INFO Vector2HiC Vector: vector c-tale_normalization chr13 50000 BP 2021-09-06 07:59:02,430 DEBUG SimpleSubprocess java -jar "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer/scripts/common/juicer_tools.jar" addNorm -j 10 "/tmp/tmphhxmp5rm/inter.hic" "/tmp/tmphhxmp5rm/vector.txt" 2021-09-06 07:59:06,138 INFO SimpleSubprocess NormalizeHiC - 0:00:03 2021-09-06 07:59:06,138 DEBUG SimpleSubprocess cp "/tmp/tmphhxmp5rm/inter.hic" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_norm.hic" 2021-09-06 07:59:06,573 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-06 07:59:07,457 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/merged_nodups.txt" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/merged_nodups.txt" 2021-09-06 08:01:13,544 INFO SimpleSubprocess CopyResult - 0:02:06 2021-09-06 08:01:13,556 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter.pairs.txt" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/inter.pairs.txt" 2021-09-06 08:01:35,669 INFO SimpleSubprocess CopyResult - 0:00:22 2021-09-06 08:01:35,669 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/vector.txt" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/vector.txt" 2021-09-06 08:01:35,884 INFO SimpleSubprocess CopyResult - 0:00:00 2021-09-06 08:01:35,884 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_norm.hic" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/inter.hic" 2021-09-06 08:01:40,593 INFO SimpleSubprocess CopyResult - 0:00:04 2021-09-06 08:01:40,599 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter.txt" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/inter_statistics.txt" 2021-09-06 08:01:40,684 INFO SimpleSubprocess CopyResult - 0:00:00 2021-09-06 08:01:40,684 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_5kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/inter_no_balanced_5kb.cool" 2021-09-06 08:01:41,234 INFO SimpleSubprocess CopyResult - 0:00:00 2021-09-06 08:01:41,234 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_5kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/inter_5kb.cool" 2021-09-06 08:01:42,081 INFO SimpleSubprocess CopyResult - 0:00:00 2021-09-06 08:01:42,082 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_10kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/inter_no_balanced_10kb.cool" 2021-09-06 08:01:42,600 INFO SimpleSubprocess CopyResult - 0:00:00 2021-09-06 08:01:42,600 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_10kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/inter_10kb.cool" 2021-09-06 08:01:42,919 INFO SimpleSubprocess CopyResult - 0:00:00 2021-09-06 08:01:42,919 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_20kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/inter_no_balanced_20kb.cool" 2021-09-06 08:01:43,272 INFO SimpleSubprocess CopyResult - 0:00:00 2021-09-06 08:01:43,302 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_20kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/inter_20kb.cool" 2021-09-06 08:01:43,867 INFO SimpleSubprocess CopyResult - 0:00:00 2021-09-06 08:01:43,868 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_25kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/inter_no_balanced_25kb.cool" 2021-09-06 08:01:44,200 INFO SimpleSubprocess CopyResult - 0:00:00 2021-09-06 08:01:44,201 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_25kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/inter_25kb.cool" 2021-09-06 08:01:44,479 INFO SimpleSubprocess CopyResult - 0:00:00 2021-09-06 08:01:44,479 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_no_balanced_50kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/inter_no_balanced_50kb.cool" 2021-09-06 08:01:44,771 INFO SimpleSubprocess CopyResult - 0:00:00 2021-09-06 08:01:44,771 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__/aligned/inter_50kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/inter_50kb.cool" 2021-09-06 08:01:45,051 INFO SimpleSubprocess CopyResult - 0:00:00 2021-09-06 08:01:45,348 DEBUG SimpleSubprocess rm -rf "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6024961-SRR6024962-SRR6024963-SRR6024964/__temp__" 2021-09-06 08:02:18,598 INFO SimpleSubprocess RemoveTemp - 0:00:33 2021-09-06 08:02:18,598 INFO BenchmarkPipeline 'SRR6024961-SRR6024962-SRR6024963-SRR6024964' FINISHED, SUMMARY TIME - 23:42:54