2021-09-14 20:19:19,558 INFO BenchmarkPipeline --- START PROCESSING 'SRR6129105-SRR6129106-SRR6129107-SRR6129108' --- 2021-09-14 20:19:19,558 INFO Sra2FastQ Accession: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129105.sra 2021-09-14 20:19:19,559 INFO Sra2FastQ Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__ 2021-09-14 20:19:19,580 DEBUG SimpleSubprocess fastq-dump --split-3 -O /tmp/tmpjy1my4tf "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129105.sra" 2021-09-14 20:42:58,987 INFO SimpleSubprocess Sra2FastQ - 0:23:39 2021-09-14 20:42:59,008 DEBUG SimpleSubprocess gzip /tmp/tmpjy1my4tf/* 2021-09-14 22:20:29,333 INFO SimpleSubprocess GZipFastQ - 1:37:30 2021-09-14 22:20:29,380 DEBUG SimpleSubprocess mkdir -p "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/fastq"; mv /tmp/tmpjy1my4tf/SRR6129105_2.fastq.gz /tmp/tmpjy1my4tf/SRR6129105_R2.fastq.gz; mv /tmp/tmpjy1my4tf/SRR6129105_1.fastq.gz /tmp/tmpjy1my4tf/SRR6129105_R1.fastq.gz; cp /tmp/tmpjy1my4tf/*_R*.fastq* "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/fastq" 2021-09-14 22:22:45,771 INFO SimpleSubprocess CopyFiles - 0:02:16 2021-09-14 22:22:47,713 INFO Sra2FastQ Accession: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129106.sra 2021-09-14 22:22:47,713 INFO Sra2FastQ Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__ 2021-09-14 22:22:47,714 DEBUG SimpleSubprocess fastq-dump --split-3 -O /tmp/tmpg1vrmj9o "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129106.sra" 2021-09-14 22:40:46,695 INFO SimpleSubprocess Sra2FastQ - 0:17:58 2021-09-14 22:40:46,715 DEBUG SimpleSubprocess gzip /tmp/tmpg1vrmj9o/* 2021-09-14 23:54:04,825 INFO SimpleSubprocess GZipFastQ - 1:13:18 2021-09-14 23:54:04,852 DEBUG SimpleSubprocess mkdir -p "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/fastq"; mv /tmp/tmpg1vrmj9o/SRR6129106_2.fastq.gz /tmp/tmpg1vrmj9o/SRR6129106_R2.fastq.gz; mv /tmp/tmpg1vrmj9o/SRR6129106_1.fastq.gz /tmp/tmpg1vrmj9o/SRR6129106_R1.fastq.gz; cp /tmp/tmpg1vrmj9o/*_R*.fastq* "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/fastq" 2021-09-14 23:55:06,167 INFO SimpleSubprocess CopyFiles - 0:01:01 2021-09-14 23:55:07,644 INFO Sra2FastQ Accession: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129107.sra 2021-09-14 23:55:07,644 INFO Sra2FastQ Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__ 2021-09-14 23:55:07,681 DEBUG SimpleSubprocess fastq-dump --split-3 -O /tmp/tmpkaonj_c2 "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129107.sra" 2021-09-15 00:23:02,772 INFO SimpleSubprocess Sra2FastQ - 0:27:55 2021-09-15 00:23:02,791 DEBUG SimpleSubprocess gzip /tmp/tmpkaonj_c2/* 2021-09-15 02:29:06,870 INFO SimpleSubprocess GZipFastQ - 2:06:04 2021-09-15 02:29:06,885 DEBUG SimpleSubprocess mkdir -p "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/fastq"; mv /tmp/tmpkaonj_c2/SRR6129107_2.fastq.gz /tmp/tmpkaonj_c2/SRR6129107_R2.fastq.gz; mv /tmp/tmpkaonj_c2/SRR6129107_1.fastq.gz /tmp/tmpkaonj_c2/SRR6129107_R1.fastq.gz; cp /tmp/tmpkaonj_c2/*_R*.fastq* "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/fastq" 2021-09-15 02:33:50,407 INFO SimpleSubprocess CopyFiles - 0:04:43 2021-09-15 02:33:52,483 INFO Sra2FastQ Accession: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129108.sra 2021-09-15 02:33:52,503 INFO Sra2FastQ Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__ 2021-09-15 02:33:52,638 DEBUG SimpleSubprocess fastq-dump --split-3 -O /tmp/tmpli7y6q09 "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129108.sra" 2021-09-15 03:04:29,288 INFO SimpleSubprocess Sra2FastQ - 0:30:36 2021-09-15 03:04:29,309 DEBUG SimpleSubprocess gzip /tmp/tmpli7y6q09/* 2021-09-15 05:13:04,567 INFO SimpleSubprocess GZipFastQ - 2:08:35 2021-09-15 05:13:04,583 DEBUG SimpleSubprocess mkdir -p "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/fastq"; mv /tmp/tmpli7y6q09/SRR6129108_1.fastq.gz /tmp/tmpli7y6q09/SRR6129108_R1.fastq.gz; mv /tmp/tmpli7y6q09/SRR6129108_2.fastq.gz /tmp/tmpli7y6q09/SRR6129108_R2.fastq.gz; cp /tmp/tmpli7y6q09/*_R*.fastq* "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/fastq" 2021-09-15 05:17:34,796 INFO SimpleSubprocess CopyFiles - 0:04:30 2021-09-15 05:17:36,749 INFO Juicer Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__ 2021-09-15 05:17:36,749 INFO Juicer Genome assembly: mm10 2021-09-15 05:17:36,749 INFO Juicer Genome FASTA path: /Data/DataBases/mm10/mm10_canonic.fa 2021-09-15 05:17:36,749 INFO Juicer Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-15 05:17:36,750 INFO Juicer Enzyme: HindIII 2021-09-15 05:17:36,750 INFO Juicer Restriction sites path: /Data/UserData/FairWind/Ya.Cloud/core/pipeline/data/restriction_sites/RestrictionSites_HindIII_mm10.txt 2021-09-15 05:17:36,750 INFO Juicer Threads: 10 2021-09-15 05:17:36,750 DEBUG SimpleSubprocess rm -rf "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/splits" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/HIC_tmp" 2021-09-15 05:17:36,815 INFO SimpleSubprocess RemoveTrash - 0:00:00 2021-09-15 05:17:36,815 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 HindIII -y "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/data/restriction_sites/RestrictionSites_HindIII_mm10.txt" -d "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__" 2021-09-16 13:46:36,024 INFO SimpleSubprocess Juicer - 1 day, 8:28:59 2021-09-16 13:46:36,218 INFO Juicer Using /Data/UserData/FairWind/Ya.Cloud/core/pipeline/data/restriction_sites/RestrictionSites_HindIII_mm10.txt as site file (-: Looking for fastq files...fastq files exist (-: Aligning files matching /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/fastq/*_R*.fastq* to genome mm10 with site file /Data/UserData/FairWind/Ya.Cloud/core/pipeline/data/restriction_sites/RestrictionSites_HindIII_mm10.txt (-: Created /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/splits and /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned. bwa mem -SP5M -t 10 /Data/DataBases/mm10/mm10_canonic.fa /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/splits/SRR6129105_R1.fastq.gz /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/splits/SRR6129105_R2.fastq.gz > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/splits/SRR6129105.fastq.gz.sam (-: Align of /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/splits/SRR6129105.fastq.gz.sam done successfully bwa mem -SP5M -t 10 /Data/DataBases/mm10/mm10_canonic.fa /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/splits/SRR6129106_R1.fastq.gz /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/splits/SRR6129106_R2.fastq.gz > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/splits/SRR6129106.fastq.gz.sam (-: Align of /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/splits/SRR6129106.fastq.gz.sam done successfully bwa mem -SP5M -t 10 /Data/DataBases/mm10/mm10_canonic.fa /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/splits/SRR6129107_R1.fastq.gz /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/splits/SRR6129107_R2.fastq.gz > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/splits/SRR6129107.fastq.gz.sam (-: Align of /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/splits/SRR6129107.fastq.gz.sam done successfully bwa mem -SP5M -t 10 /Data/DataBases/mm10/mm10_canonic.fa /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/splits/SRR6129108_R1.fastq.gz /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/splits/SRR6129108_R2.fastq.gz > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/splits/SRR6129108.fastq.gz.sam (-: Align of /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/splits/SRR6129108.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 [2021-09-16T06:40:37,533] [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 [2021-09-16T10:38:03,646] [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/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__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 [2021-09-16T13:31:51,391] [Globals.java:138] [main] Development mode is enabled Reading file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_30.hic Using 1 CPU thread(s) Default settings for 10kb being used max 21.0 4% 9% 14% 19% 23% 28% 33% 38% 42% 47% 52% 57% 61% 66% 71% 76% 80% 85% 90% 95% 100% 227 features written to file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_30_contact_domains/10000_blocks.bedpe 227 domains written to file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_30_contact_domains/10000_blocks.bedpe Arrowhead complete 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/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned for results 2021-09-16 13:46:36,520 INFO MakeInterPairs Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/merged_nodups.txt 2021-09-16 13:46:36,520 INFO MakeInterPairs Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter.pairs.txt 2021-09-16 13:46:36,744 DEBUG SimpleSubprocess awk -F " " '{print $2 "\t" $3 "\t" $6 "\t" $7}' "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/merged_nodups.txt" > "/tmp/tmp_aiid5qg/inter.pairs.txt" 2021-09-16 13:57:27,572 INFO SimpleSubprocess MakeInterPairs - 0:10:50 2021-09-16 13:57:27,591 DEBUG SimpleSubprocess cp "/tmp/tmp_aiid5qg/inter.pairs.txt" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter.pairs.txt" 2021-09-16 13:57:55,996 INFO SimpleSubprocess CopyFiles - 0:00:28 2021-09-16 13:57:57,426 INFO Pairs2Cool Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter.pairs.txt 2021-09-16 13:57:57,426 INFO Pairs2Cool Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_5kb.cool 2021-09-16 13:57:57,426 INFO Pairs2Cool Genome assembly: mm10 2021-09-16 13:57:57,427 INFO Pairs2Cool Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-16 13:57:57,427 INFO Pairs2Cool Resolution [bp]: 5000 2021-09-16 13:57:57,472 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/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter.pairs.txt" "/tmp/tmpgwaovsrd/inter_no_balanced.cool" 2021-09-16 14:10:49,764 INFO SimpleSubprocess MakeCool - 0:12:52 2021-09-16 14:10:49,764 DEBUG SimpleSubprocess cp "/tmp/tmpgwaovsrd/inter_no_balanced.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_5kb.cool" 2021-09-16 14:10:50,143 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-16 14:10:50,193 INFO Pairs2Cool Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter.pairs.txt 2021-09-16 14:10:50,194 INFO Pairs2Cool Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_10kb.cool 2021-09-16 14:10:50,194 INFO Pairs2Cool Genome assembly: mm10 2021-09-16 14:10:50,194 INFO Pairs2Cool Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-16 14:10:50,194 INFO Pairs2Cool Resolution [bp]: 10000 2021-09-16 14:10:50,211 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/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter.pairs.txt" "/tmp/tmpb11qyoda/inter_no_balanced.cool" 2021-09-16 14:23:01,977 INFO SimpleSubprocess MakeCool - 0:12:11 2021-09-16 14:23:01,977 DEBUG SimpleSubprocess cp "/tmp/tmpb11qyoda/inter_no_balanced.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_10kb.cool" 2021-09-16 14:23:02,330 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-16 14:23:02,415 INFO Pairs2Cool Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter.pairs.txt 2021-09-16 14:23:02,415 INFO Pairs2Cool Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_20kb.cool 2021-09-16 14:23:02,415 INFO Pairs2Cool Genome assembly: mm10 2021-09-16 14:23:02,415 INFO Pairs2Cool Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-16 14:23:02,415 INFO Pairs2Cool Resolution [bp]: 20000 2021-09-16 14:23:02,448 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/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter.pairs.txt" "/tmp/tmpzqwxbo1s/inter_no_balanced.cool" 2021-09-16 14:34:41,173 INFO SimpleSubprocess MakeCool - 0:11:38 2021-09-16 14:34:41,173 DEBUG SimpleSubprocess cp "/tmp/tmpzqwxbo1s/inter_no_balanced.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_20kb.cool" 2021-09-16 14:34:41,449 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-16 14:34:41,487 INFO Pairs2Cool Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter.pairs.txt 2021-09-16 14:34:41,487 INFO Pairs2Cool Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_25kb.cool 2021-09-16 14:34:41,487 INFO Pairs2Cool Genome assembly: mm10 2021-09-16 14:34:41,487 INFO Pairs2Cool Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-16 14:34:41,487 INFO Pairs2Cool Resolution [bp]: 25000 2021-09-16 14:34:41,523 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/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter.pairs.txt" "/tmp/tmp9b6py_5k/inter_no_balanced.cool" 2021-09-16 14:46:15,623 INFO SimpleSubprocess MakeCool - 0:11:34 2021-09-16 14:46:15,624 DEBUG SimpleSubprocess cp "/tmp/tmp9b6py_5k/inter_no_balanced.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_25kb.cool" 2021-09-16 14:46:15,872 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-16 14:46:15,935 INFO Pairs2Cool Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter.pairs.txt 2021-09-16 14:46:15,935 INFO Pairs2Cool Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_50kb.cool 2021-09-16 14:46:15,935 INFO Pairs2Cool Genome assembly: mm10 2021-09-16 14:46:15,935 INFO Pairs2Cool Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-16 14:46:15,935 INFO Pairs2Cool Resolution [bp]: 50000 2021-09-16 14:46:16,011 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/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter.pairs.txt" "/tmp/tmp03t_wyyq/inter_no_balanced.cool" 2021-09-16 14:57:15,122 INFO SimpleSubprocess MakeCool - 0:10:59 2021-09-16 14:57:15,123 DEBUG SimpleSubprocess cp "/tmp/tmp03t_wyyq/inter_no_balanced.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_50kb.cool" 2021-09-16 14:57:15,352 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-16 14:57:15,443 INFO CTaleNormalize Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_5kb.cool 2021-09-16 14:57:15,443 INFO CTaleNormalize Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_5kb.cool 2021-09-16 14:57:15,443 INFO CTaleNormalize Capture: chrX:50,550,000-50,675,000 2021-09-16 14:57:15,474 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_5kb.cool" "/tmp/tmpq8gho4cq/inter.cool" 2021-09-16 14:57:15,847 INFO SimpleSubprocess TempFiles - 0:00:00 2021-09-16 14:57:15,848 DEBUG SimpleSubprocess ctale_normalize "/tmp/tmpq8gho4cq/inter.cool" "chrX:50,550,000-50,675,000" 2021-09-16 14:57:25,063 INFO SimpleSubprocess NormalizeCool - 0:00:09 2021-09-16 14:57:25,063 DEBUG SimpleSubprocess cp "/tmp/tmpq8gho4cq/inter.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_5kb.cool" 2021-09-16 14:57:25,432 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-16 14:57:25,653 INFO CTaleNormalize Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_10kb.cool 2021-09-16 14:57:25,653 INFO CTaleNormalize Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_10kb.cool 2021-09-16 14:57:25,654 INFO CTaleNormalize Capture: chrX:50,550,000-50,675,000 2021-09-16 14:57:25,747 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_10kb.cool" "/tmp/tmpbtasa3p0/inter.cool" 2021-09-16 14:57:26,098 INFO SimpleSubprocess TempFiles - 0:00:00 2021-09-16 14:57:26,098 DEBUG SimpleSubprocess ctale_normalize "/tmp/tmpbtasa3p0/inter.cool" "chrX:50,550,000-50,675,000" 2021-09-16 14:57:28,713 INFO SimpleSubprocess NormalizeCool - 0:00:02 2021-09-16 14:57:28,713 DEBUG SimpleSubprocess cp "/tmp/tmpbtasa3p0/inter.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_10kb.cool" 2021-09-16 14:57:29,028 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-16 14:57:29,077 INFO CTaleNormalize Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_20kb.cool 2021-09-16 14:57:29,077 INFO CTaleNormalize Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_20kb.cool 2021-09-16 14:57:29,077 INFO CTaleNormalize Capture: chrX:50,550,000-50,675,000 2021-09-16 14:57:29,101 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_20kb.cool" "/tmp/tmp5sijmgt_/inter.cool" 2021-09-16 14:57:29,376 INFO SimpleSubprocess TempFiles - 0:00:00 2021-09-16 14:57:29,376 DEBUG SimpleSubprocess ctale_normalize "/tmp/tmp5sijmgt_/inter.cool" "chrX:50,550,000-50,675,000" 2021-09-16 14:57:31,499 INFO SimpleSubprocess NormalizeCool - 0:00:02 2021-09-16 14:57:31,499 DEBUG SimpleSubprocess cp "/tmp/tmp5sijmgt_/inter.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_20kb.cool" 2021-09-16 14:57:31,767 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-16 14:57:31,809 INFO CTaleNormalize Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_25kb.cool 2021-09-16 14:57:31,809 INFO CTaleNormalize Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_25kb.cool 2021-09-16 14:57:31,809 INFO CTaleNormalize Capture: chrX:50,550,000-50,675,000 2021-09-16 14:57:31,831 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_25kb.cool" "/tmp/tmpp9o3ftsf/inter.cool" 2021-09-16 14:57:32,079 INFO SimpleSubprocess TempFiles - 0:00:00 2021-09-16 14:57:32,079 DEBUG SimpleSubprocess ctale_normalize "/tmp/tmpp9o3ftsf/inter.cool" "chrX:50,550,000-50,675,000" 2021-09-16 14:57:34,083 INFO SimpleSubprocess NormalizeCool - 0:00:02 2021-09-16 14:57:34,084 DEBUG SimpleSubprocess cp "/tmp/tmpp9o3ftsf/inter.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_25kb.cool" 2021-09-16 14:57:34,347 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-16 14:57:34,386 INFO CTaleNormalize Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_50kb.cool 2021-09-16 14:57:34,386 INFO CTaleNormalize Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_50kb.cool 2021-09-16 14:57:34,386 INFO CTaleNormalize Capture: chrX:50,550,000-50,675,000 2021-09-16 14:57:34,430 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_50kb.cool" "/tmp/tmpwcn3xaz_/inter.cool" 2021-09-16 14:57:34,662 INFO SimpleSubprocess TempFiles - 0:00:00 2021-09-16 14:57:34,663 DEBUG SimpleSubprocess ctale_normalize "/tmp/tmpwcn3xaz_/inter.cool" "chrX:50,550,000-50,675,000" 2021-09-16 14:57:36,369 INFO SimpleSubprocess NormalizeCool - 0:00:01 2021-09-16 14:57:36,369 DEBUG SimpleSubprocess cp "/tmp/tmpwcn3xaz_/inter.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_50kb.cool" 2021-09-16 14:57:36,577 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-16 14:57:36,645 DEBUG SimpleSubprocess echo > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/vector.txt 2021-09-16 14:57:36,652 INFO SimpleSubprocess MakeVector - 0:00:00 2021-09-16 14:57:36,702 INFO AddWeight Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_5kb.cool 2021-09-16 14:57:36,702 INFO AddWeight Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/vector.txt 2021-09-16 14:57:36,702 INFO AddWeight Chromosome: chrX 2021-09-16 14:57:36,702 INFO AddWeight Resolution [bp]: 5000 2021-09-16 14:57:39,070 INFO AddWeight AddWeight successfully finished 2021-09-16 14:57:39,070 INFO AddWeight Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_10kb.cool 2021-09-16 14:57:39,070 INFO AddWeight Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/vector.txt 2021-09-16 14:57:39,070 INFO AddWeight Chromosome: chrX 2021-09-16 14:57:39,070 INFO AddWeight Resolution [bp]: 10000 2021-09-16 14:57:39,145 INFO AddWeight AddWeight successfully finished 2021-09-16 14:57:39,145 INFO AddWeight Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_20kb.cool 2021-09-16 14:57:39,145 INFO AddWeight Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/vector.txt 2021-09-16 14:57:39,146 INFO AddWeight Chromosome: chrX 2021-09-16 14:57:39,146 INFO AddWeight Resolution [bp]: 20000 2021-09-16 14:57:39,183 INFO AddWeight AddWeight successfully finished 2021-09-16 14:57:39,183 INFO AddWeight Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_25kb.cool 2021-09-16 14:57:39,183 INFO AddWeight Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/vector.txt 2021-09-16 14:57:39,183 INFO AddWeight Chromosome: chrX 2021-09-16 14:57:39,183 INFO AddWeight Resolution [bp]: 25000 2021-09-16 14:57:39,215 INFO AddWeight AddWeight successfully finished 2021-09-16 14:57:39,215 INFO AddWeight Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_50kb.cool 2021-09-16 14:57:39,215 INFO AddWeight Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/vector.txt 2021-09-16 14:57:39,215 INFO AddWeight Chromosome: chrX 2021-09-16 14:57:39,215 INFO AddWeight Resolution [bp]: 50000 2021-09-16 14:57:39,238 INFO AddWeight AddWeight successfully finished 2021-09-16 14:57:39,255 INFO Vector2HiC Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter.hic 2021-09-16 14:57:39,255 INFO Vector2HiC Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_norm.hic 2021-09-16 14:57:39,255 INFO Vector2HiC Vector: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/vector.txt 2021-09-16 14:57:39,255 INFO Vector2HiC Threads: 10 2021-09-16 14:57:39,286 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter.hic" "/tmp/tmpp1_1l3jd/inter.hic" 2021-09-16 14:57:43,403 INFO SimpleSubprocess TempFiles - 0:00:04 2021-09-16 14:57:43,403 INFO Vector2HiC Vector: vector c-tale_normalization chrX 5000 BP 2021-09-16 14:57:43,405 DEBUG SimpleSubprocess java -jar "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer/scripts/common/juicer_tools.jar" addNorm -j 10 "/tmp/tmpp1_1l3jd/inter.hic" "/tmp/tmpp1_1l3jd/vector.txt" 2021-09-16 14:57:49,366 INFO SimpleSubprocess NormalizeHiC - 0:00:05 2021-09-16 14:57:49,366 INFO Vector2HiC Vector: vector c-tale_normalization chrX 10000 BP 2021-09-16 14:57:49,367 DEBUG SimpleSubprocess java -jar "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer/scripts/common/juicer_tools.jar" addNorm -j 10 "/tmp/tmpp1_1l3jd/inter.hic" "/tmp/tmpp1_1l3jd/vector.txt" 2021-09-16 14:57:53,728 INFO SimpleSubprocess NormalizeHiC - 0:00:04 2021-09-16 14:57:53,728 INFO Vector2HiC Vector: vector c-tale_normalization chrX 20000 BP 2021-09-16 14:57:53,729 DEBUG SimpleSubprocess java -jar "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer/scripts/common/juicer_tools.jar" addNorm -j 10 "/tmp/tmpp1_1l3jd/inter.hic" "/tmp/tmpp1_1l3jd/vector.txt" 2021-09-16 14:57:57,548 INFO SimpleSubprocess NormalizeHiC - 0:00:03 2021-09-16 14:57:57,549 INFO Vector2HiC Vector: vector c-tale_normalization chrX 25000 BP 2021-09-16 14:57:57,549 DEBUG SimpleSubprocess java -jar "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer/scripts/common/juicer_tools.jar" addNorm -j 10 "/tmp/tmpp1_1l3jd/inter.hic" "/tmp/tmpp1_1l3jd/vector.txt" 2021-09-16 14:58:01,580 INFO SimpleSubprocess NormalizeHiC - 0:00:04 2021-09-16 14:58:01,581 INFO Vector2HiC Vector: vector c-tale_normalization chrX 50000 BP 2021-09-16 14:58:01,584 DEBUG SimpleSubprocess java -jar "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer/scripts/common/juicer_tools.jar" addNorm -j 10 "/tmp/tmpp1_1l3jd/inter.hic" "/tmp/tmpp1_1l3jd/vector.txt" 2021-09-16 14:58:05,580 INFO SimpleSubprocess NormalizeHiC - 0:00:03 2021-09-16 14:58:05,580 DEBUG SimpleSubprocess cp "/tmp/tmpp1_1l3jd/inter.hic" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_norm.hic" 2021-09-16 14:58:08,050 INFO SimpleSubprocess CopyFiles - 0:00:02 2021-09-16 14:58:08,547 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/merged_nodups.txt" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/merged_nodups.txt" 2021-09-16 15:20:17,846 INFO SimpleSubprocess CopyResult - 0:22:09 2021-09-16 15:20:17,860 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter.pairs.txt" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/inter.pairs.txt" 2021-09-16 15:21:33,371 INFO SimpleSubprocess CopyResult - 0:01:15 2021-09-16 15:21:33,371 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/vector.txt" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/vector.txt" 2021-09-16 15:21:33,448 INFO SimpleSubprocess CopyResult - 0:00:00 2021-09-16 15:21:33,448 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_norm.hic" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/inter.hic" 2021-09-16 15:22:00,036 INFO SimpleSubprocess CopyResult - 0:00:26 2021-09-16 15:22:00,036 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter.txt" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/inter_statistics.txt" 2021-09-16 15:22:00,086 INFO SimpleSubprocess CopyResult - 0:00:00 2021-09-16 15:22:00,087 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_5kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/inter_no_balanced_5kb.cool" 2021-09-16 15:22:03,694 INFO SimpleSubprocess CopyResult - 0:00:03 2021-09-16 15:22:03,694 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_5kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/inter_5kb.cool" 2021-09-16 15:22:07,569 INFO SimpleSubprocess CopyResult - 0:00:03 2021-09-16 15:22:07,569 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_10kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/inter_no_balanced_10kb.cool" 2021-09-16 15:22:12,036 INFO SimpleSubprocess CopyResult - 0:00:04 2021-09-16 15:22:12,036 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_10kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/inter_10kb.cool" 2021-09-16 15:22:14,774 INFO SimpleSubprocess CopyResult - 0:00:02 2021-09-16 15:22:14,774 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_20kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/inter_no_balanced_20kb.cool" 2021-09-16 15:22:17,755 INFO SimpleSubprocess CopyResult - 0:00:02 2021-09-16 15:22:17,755 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_20kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/inter_20kb.cool" 2021-09-16 15:22:21,269 INFO SimpleSubprocess CopyResult - 0:00:03 2021-09-16 15:22:21,269 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_25kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/inter_no_balanced_25kb.cool" 2021-09-16 15:22:23,034 INFO SimpleSubprocess CopyResult - 0:00:01 2021-09-16 15:22:23,035 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_25kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/inter_25kb.cool" 2021-09-16 15:22:26,028 INFO SimpleSubprocess CopyResult - 0:00:02 2021-09-16 15:22:26,028 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_no_balanced_50kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/inter_no_balanced_50kb.cool" 2021-09-16 15:22:28,064 INFO SimpleSubprocess CopyResult - 0:00:02 2021-09-16 15:22:28,064 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__/aligned/inter_50kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/inter_50kb.cool" 2021-09-16 15:22:30,463 INFO SimpleSubprocess CopyResult - 0:00:02 2021-09-16 15:22:30,498 DEBUG SimpleSubprocess rm -rf "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__" 2021-09-16 15:23:18,108 INFO SimpleSubprocess RemoveTemp - 0:00:47 2021-09-16 15:23:18,108 INFO BenchmarkPipeline 'SRR6129105-SRR6129106-SRR6129107-SRR6129108' FINISHED, SUMMARY TIME - 1 day, 19:03:58 2021-09-20 11:27:07,164 INFO BenchmarkPipeline --- START PROCESSING 'SRR6129105-SRR6129106-SRR6129107-SRR6129108' --- 2021-09-20 11:27:07,182 DEBUG SimpleSubprocess rm -rf "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__" 2021-09-20 11:27:07,190 INFO SimpleSubprocess RemoveTemp - 0:00:00 2021-09-20 11:27:07,190 INFO BenchmarkPipeline 'SRR6129105-SRR6129106-SRR6129107-SRR6129108' FINISHED, SUMMARY TIME - 0:00:00 2021-09-20 11:28:38,891 INFO BenchmarkPipeline --- START PROCESSING 'SRR6129105-SRR6129106-SRR6129107-SRR6129108' --- 2021-09-20 11:28:38,891 DEBUG SimpleSubprocess rm -rf "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129105-SRR6129106-SRR6129107-SRR6129108/__temp__" 2021-09-20 11:28:38,898 INFO SimpleSubprocess RemoveTemp - 0:00:00 2021-09-20 11:28:38,899 INFO BenchmarkPipeline 'SRR6129105-SRR6129106-SRR6129107-SRR6129108' FINISHED, SUMMARY TIME - 0:00:00