2021-09-07 16:45:04,622 INFO BenchmarkPipeline --- START PROCESSING 'SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097' --- 2021-09-07 16:45:04,622 INFO Sra2FastQ Accession: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129090.sra 2021-09-07 16:45:04,622 INFO Sra2FastQ Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__ 2021-09-07 16:45:04,685 DEBUG SimpleSubprocess fastq-dump --split-3 -O /tmp/tmplm92pgcw "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129090.sra" 2021-09-07 17:16:12,081 INFO SimpleSubprocess Sra2FastQ - 0:31:07 2021-09-07 17:16:12,094 DEBUG SimpleSubprocess gzip /tmp/tmplm92pgcw/* 2021-09-07 19:28:44,991 INFO SimpleSubprocess GZipFastQ - 2:12:32 2021-09-07 19:28:45,000 DEBUG SimpleSubprocess mkdir -p "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/fastq"; mv /tmp/tmplm92pgcw/SRR6129090_2.fastq.gz /tmp/tmplm92pgcw/SRR6129090_R2.fastq.gz; mv /tmp/tmplm92pgcw/SRR6129090_1.fastq.gz /tmp/tmplm92pgcw/SRR6129090_R1.fastq.gz; cp /tmp/tmplm92pgcw/*_R*.fastq* "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/fastq" 2021-09-07 19:33:26,973 INFO SimpleSubprocess CopyFiles - 0:04:41 2021-09-07 19:33:29,004 INFO Sra2FastQ Accession: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129091.sra 2021-09-07 19:33:29,004 INFO Sra2FastQ Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__ 2021-09-07 19:33:29,005 DEBUG SimpleSubprocess fastq-dump --split-3 -O /tmp/tmpyiik6kph "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129091.sra" 2021-09-07 20:04:47,623 INFO SimpleSubprocess Sra2FastQ - 0:31:18 2021-09-07 20:04:47,646 DEBUG SimpleSubprocess gzip /tmp/tmpyiik6kph/* 2021-09-07 22:17:33,129 INFO SimpleSubprocess GZipFastQ - 2:12:45 2021-09-07 22:17:33,143 DEBUG SimpleSubprocess mkdir -p "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/fastq"; mv /tmp/tmpyiik6kph/SRR6129091_2.fastq.gz /tmp/tmpyiik6kph/SRR6129091_R2.fastq.gz; mv /tmp/tmpyiik6kph/SRR6129091_1.fastq.gz /tmp/tmpyiik6kph/SRR6129091_R1.fastq.gz; cp /tmp/tmpyiik6kph/*_R*.fastq* "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/fastq" 2021-09-07 22:21:38,384 INFO SimpleSubprocess CopyFiles - 0:04:05 2021-09-07 22:21:40,257 INFO Sra2FastQ Accession: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129092.sra 2021-09-07 22:21:40,258 INFO Sra2FastQ Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__ 2021-09-07 22:21:40,258 DEBUG SimpleSubprocess fastq-dump --split-3 -O /tmp/tmpz1li7z08 "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129092.sra" 2021-09-07 22:32:30,446 INFO SimpleSubprocess Sra2FastQ - 0:10:50 2021-09-07 22:32:30,497 DEBUG SimpleSubprocess gzip /tmp/tmpz1li7z08/* 2021-09-07 23:17:38,999 INFO SimpleSubprocess GZipFastQ - 0:45:08 2021-09-07 23:17:39,024 DEBUG SimpleSubprocess mkdir -p "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/fastq"; mv /tmp/tmpz1li7z08/SRR6129092_1.fastq.gz /tmp/tmpz1li7z08/SRR6129092_R1.fastq.gz; mv /tmp/tmpz1li7z08/SRR6129092_2.fastq.gz /tmp/tmpz1li7z08/SRR6129092_R2.fastq.gz; cp /tmp/tmpz1li7z08/*_R*.fastq* "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/fastq" 2021-09-07 23:17:56,728 INFO SimpleSubprocess CopyFiles - 0:00:17 2021-09-07 23:17:58,002 INFO Sra2FastQ Accession: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129093.sra 2021-09-07 23:17:58,002 INFO Sra2FastQ Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__ 2021-09-07 23:17:58,002 DEBUG SimpleSubprocess fastq-dump --split-3 -O /tmp/tmp3fxlxpzn "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129093.sra" 2021-09-07 23:28:42,313 INFO SimpleSubprocess Sra2FastQ - 0:10:44 2021-09-07 23:28:42,350 DEBUG SimpleSubprocess gzip /tmp/tmp3fxlxpzn/* 2021-09-08 00:13:14,425 INFO SimpleSubprocess GZipFastQ - 0:44:32 2021-09-08 00:13:14,425 DEBUG SimpleSubprocess mkdir -p "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/fastq"; mv /tmp/tmp3fxlxpzn/SRR6129093_1.fastq.gz /tmp/tmp3fxlxpzn/SRR6129093_R1.fastq.gz; mv /tmp/tmp3fxlxpzn/SRR6129093_2.fastq.gz /tmp/tmp3fxlxpzn/SRR6129093_R2.fastq.gz; cp /tmp/tmp3fxlxpzn/*_R*.fastq* "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/fastq" 2021-09-08 00:13:32,792 INFO SimpleSubprocess CopyFiles - 0:00:18 2021-09-08 00:13:34,035 INFO Sra2FastQ Accession: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129094.sra 2021-09-08 00:13:34,035 INFO Sra2FastQ Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__ 2021-09-08 00:13:34,060 DEBUG SimpleSubprocess fastq-dump --split-3 -O /tmp/tmpx9qehbo0 "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129094.sra" 2021-09-08 00:24:18,080 INFO SimpleSubprocess Sra2FastQ - 0:10:44 2021-09-08 00:24:18,121 DEBUG SimpleSubprocess gzip /tmp/tmpx9qehbo0/* 2021-09-08 01:09:19,537 INFO SimpleSubprocess GZipFastQ - 0:45:01 2021-09-08 01:09:19,537 DEBUG SimpleSubprocess mkdir -p "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/fastq"; mv /tmp/tmpx9qehbo0/SRR6129094_2.fastq.gz /tmp/tmpx9qehbo0/SRR6129094_R2.fastq.gz; mv /tmp/tmpx9qehbo0/SRR6129094_1.fastq.gz /tmp/tmpx9qehbo0/SRR6129094_R1.fastq.gz; cp /tmp/tmpx9qehbo0/*_R*.fastq* "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/fastq" 2021-09-08 01:09:38,175 INFO SimpleSubprocess CopyFiles - 0:00:18 2021-09-08 01:09:39,673 INFO Sra2FastQ Accession: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129095.sra 2021-09-08 01:09:39,673 INFO Sra2FastQ Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__ 2021-09-08 01:09:39,673 DEBUG SimpleSubprocess fastq-dump --split-3 -O /tmp/tmpte0rlig1 "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129095.sra" 2021-09-08 01:27:15,764 INFO SimpleSubprocess Sra2FastQ - 0:17:36 2021-09-08 01:27:15,786 DEBUG SimpleSubprocess gzip /tmp/tmpte0rlig1/* 2021-09-08 02:41:30,784 INFO SimpleSubprocess GZipFastQ - 1:14:14 2021-09-08 02:41:30,824 DEBUG SimpleSubprocess mkdir -p "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/fastq"; mv /tmp/tmpte0rlig1/SRR6129095_1.fastq.gz /tmp/tmpte0rlig1/SRR6129095_R1.fastq.gz; mv /tmp/tmpte0rlig1/SRR6129095_2.fastq.gz /tmp/tmpte0rlig1/SRR6129095_R2.fastq.gz; cp /tmp/tmpte0rlig1/*_R*.fastq* "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/fastq" 2021-09-08 02:42:46,435 INFO SimpleSubprocess CopyFiles - 0:01:15 2021-09-08 02:42:47,980 INFO Sra2FastQ Accession: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129096.sra 2021-09-08 02:42:47,980 INFO Sra2FastQ Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__ 2021-09-08 02:42:47,980 DEBUG SimpleSubprocess fastq-dump --split-3 -O /tmp/tmpg8r82f1f "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129096.sra" 2021-09-08 03:00:26,463 INFO SimpleSubprocess Sra2FastQ - 0:17:38 2021-09-08 03:00:26,482 DEBUG SimpleSubprocess gzip /tmp/tmpg8r82f1f/* 2021-09-08 04:16:19,687 INFO SimpleSubprocess GZipFastQ - 1:15:53 2021-09-08 04:16:19,752 DEBUG SimpleSubprocess mkdir -p "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/fastq"; mv /tmp/tmpg8r82f1f/SRR6129096_1.fastq.gz /tmp/tmpg8r82f1f/SRR6129096_R1.fastq.gz; mv /tmp/tmpg8r82f1f/SRR6129096_2.fastq.gz /tmp/tmpg8r82f1f/SRR6129096_R2.fastq.gz; cp /tmp/tmpg8r82f1f/*_R*.fastq* "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/fastq" 2021-09-08 04:17:33,600 INFO SimpleSubprocess CopyFiles - 0:01:13 2021-09-08 04:17:35,253 INFO Sra2FastQ Accession: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129097.sra 2021-09-08 04:17:35,253 INFO Sra2FastQ Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__ 2021-09-08 04:17:35,253 DEBUG SimpleSubprocess fastq-dump --split-3 -O /tmp/tmpik3r23kc "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Source/SRR6129097.sra" 2021-09-08 04:35:15,245 INFO SimpleSubprocess Sra2FastQ - 0:17:39 2021-09-08 04:35:15,263 DEBUG SimpleSubprocess gzip /tmp/tmpik3r23kc/* 2021-09-08 05:51:55,702 INFO SimpleSubprocess GZipFastQ - 1:16:40 2021-09-08 05:51:55,750 DEBUG SimpleSubprocess mkdir -p "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/fastq"; mv /tmp/tmpik3r23kc/SRR6129097_1.fastq.gz /tmp/tmpik3r23kc/SRR6129097_R1.fastq.gz; mv /tmp/tmpik3r23kc/SRR6129097_2.fastq.gz /tmp/tmpik3r23kc/SRR6129097_R2.fastq.gz; cp /tmp/tmpik3r23kc/*_R*.fastq* "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/fastq" 2021-09-08 05:53:14,427 INFO SimpleSubprocess CopyFiles - 0:01:18 2021-09-08 05:53:16,435 INFO Juicer Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__ 2021-09-08 05:53:16,435 INFO Juicer Genome assembly: mm10 2021-09-08 05:53:16,436 INFO Juicer Genome FASTA path: /Data/DataBases/mm10/mm10_canonic.fa 2021-09-08 05:53:16,436 INFO Juicer Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-08 05:53:16,436 INFO Juicer Enzyme: HindIII 2021-09-08 05:53:16,436 INFO Juicer Restriction sites path: /Data/UserData/FairWind/Ya.Cloud/core/pipeline/data/restriction_sites/RestrictionSites_HindIII_mm10.txt 2021-09-08 05:53:16,436 INFO Juicer Threads: 10 2021-09-08 05:53:16,436 DEBUG SimpleSubprocess rm -rf "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits" 2021-09-08 05:53:16,520 INFO SimpleSubprocess RemoveTrash - 0:00:00 2021-09-08 05:53:16,521 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/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__" 2021-09-10 00:33:01,517 ERROR SimpleSubprocess Command 'Juicer' has returned non-zero exit code [1] 2021-09-10 00:33:01,597 ERROR SimpleSubprocess Command: 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/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__" 2021-09-10 00:33:01,597 ERROR SimpleSubprocess Details: [M::bwa_idx_load_from_disk] read 0 ALT contigs [M::process] read 800000 sequences (100000000 bp)... [M::process] read 800000 sequences (100000000 bp)... [M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1649, 232099, 1571, 1662) [M::mem_pestat] analyzing insert size distribution for orientation FF... [M::mem_pestat] (25, 50, 75) percentile: (1655, 4049, 6562) [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 16376) [M::mem_pestat] mean and std.dev: (4271.90, 2923.03) [M::mem_pestat] low and high boundaries for proper pairs: (1, 21283) [M::mem_pestat] analyzing insert size distribution for orientation FR... [M::mem_pestat] (25, 50, 75) percentile: (160, 195, 234) [M::mem_pestat] low and high boundaries for computing mean and std.dev: (12, 382) [M::mem_pestat] mean and std.dev: (196.58, 53.91) [M::mem_pestat] low and high boundaries for proper pairs: (1, 456) [M::mem_pestat] analyzing insert size distribution for orientation RF... [M::mem_pestat] (25, 50, 75) percentile: (2217, 4380, 7171) [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 17079) [M::mem_pestat] mean and std.dev: (4675.88, 2871.91) [M::mem_pestat] low and high boundaries for proper pairs: (1, 22033) [M::mem_pestat] analyzing insert size distribution for orientation RR... [M::mem_pestat] (25, 2021-09-10 13:00:59,282 INFO BenchmarkPipeline --- START PROCESSING 'SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097' --- 2021-09-10 13:00:59,283 INFO Juicer Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__ 2021-09-10 13:00:59,283 INFO Juicer Genome assembly: mm10 2021-09-10 13:00:59,283 INFO Juicer Genome FASTA path: /Data/DataBases/mm10/mm10_canonic.fa 2021-09-10 13:00:59,284 INFO Juicer Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-10 13:00:59,284 INFO Juicer Enzyme: HindIII 2021-09-10 13:00:59,284 INFO Juicer Restriction sites path: /Data/UserData/FairWind/Ya.Cloud/core/pipeline/data/restriction_sites/RestrictionSites_HindIII_mm10.txt 2021-09-10 13:00:59,284 INFO Juicer Threads: 10 2021-09-10 13:00:59,285 DEBUG SimpleSubprocess rm -rf "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/HIC_tmp" 2021-09-10 14:57:27,853 INFO BenchmarkPipeline --- START PROCESSING 'SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097' --- 2021-09-10 14:57:27,853 INFO Juicer Directory: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__ 2021-09-10 14:57:27,853 INFO Juicer Genome assembly: mm10 2021-09-10 14:57:27,853 INFO Juicer Genome FASTA path: /Data/DataBases/mm10/mm10_canonic.fa 2021-09-10 14:57:27,853 INFO Juicer Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-10 14:57:27,853 INFO Juicer Enzyme: HindIII 2021-09-10 14:57:27,853 INFO Juicer Restriction sites path: /Data/UserData/FairWind/Ya.Cloud/core/pipeline/data/restriction_sites/RestrictionSites_HindIII_mm10.txt 2021-09-10 14:57:27,853 INFO Juicer Threads: 10 2021-09-10 14:57:27,853 DEBUG SimpleSubprocess rm -rf "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/HIC_tmp" 2021-09-10 14:57:27,860 INFO SimpleSubprocess RemoveTrash - 0:00:00 2021-09-10 14:57:27,860 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/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__" 2021-09-12 20:24:26,555 INFO SimpleSubprocess Juicer - 2 days, 5:26:58 2021-09-12 20:24:27,230 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/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__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/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits and /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned. bwa mem -SP5M -t 10 /Data/DataBases/mm10/mm10_canonic.fa /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129090_R1.fastq.gz /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129090_R2.fastq.gz > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129090.fastq.gz.sam (-: Align of /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129090.fastq.gz.sam done successfully bwa mem -SP5M -t 10 /Data/DataBases/mm10/mm10_canonic.fa /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129091_R1.fastq.gz /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129091_R2.fastq.gz > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129091.fastq.gz.sam (-: Align of /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129091.fastq.gz.sam done successfully bwa mem -SP5M -t 10 /Data/DataBases/mm10/mm10_canonic.fa /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129092_R1.fastq.gz /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129092_R2.fastq.gz > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129092.fastq.gz.sam (-: Align of /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129092.fastq.gz.sam done successfully bwa mem -SP5M -t 10 /Data/DataBases/mm10/mm10_canonic.fa /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129093_R1.fastq.gz /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129093_R2.fastq.gz > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129093.fastq.gz.sam (-: Align of /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129093.fastq.gz.sam done successfully bwa mem -SP5M -t 10 /Data/DataBases/mm10/mm10_canonic.fa /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129094_R1.fastq.gz /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129094_R2.fastq.gz > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129094.fastq.gz.sam (-: Align of /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129094.fastq.gz.sam done successfully bwa mem -SP5M -t 10 /Data/DataBases/mm10/mm10_canonic.fa /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129095_R1.fastq.gz /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129095_R2.fastq.gz > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129095.fastq.gz.sam (-: Align of /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129095.fastq.gz.sam done successfully bwa mem -SP5M -t 10 /Data/DataBases/mm10/mm10_canonic.fa /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129096_R1.fastq.gz /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129096_R2.fastq.gz > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129096.fastq.gz.sam (-: Align of /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129096.fastq.gz.sam done successfully bwa mem -SP5M -t 10 /Data/DataBases/mm10/mm10_canonic.fa /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129097_R1.fastq.gz /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129097_R2.fastq.gz > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129097.fastq.gz.sam (-: Align of /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/splits/SRR6129097.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 [2021-09-12T07:08:54,307] [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_1000WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance. WARN [2021-09-12T14:31:15,823] [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/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__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 [2021-09-12T19:55:45,252] [Globals.java:138] [main] Development mode is enabled Reading file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_30.hic Using 1 CPU thread(s) Default settings for 5kb 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% 613 features written to file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_30_contact_domains/5000_blocks.bedpe 613 domains written to file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_30_contact_domains/5000_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/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned for results 2021-09-12 20:24:27,660 INFO MakeInterPairs Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/merged_nodups.txt 2021-09-12 20:24:27,665 INFO MakeInterPairs Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter.pairs.txt 2021-09-12 20:24:28,105 DEBUG SimpleSubprocess awk -F " " '{print $2 "\t" $3 "\t" $6 "\t" $7}' "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/merged_nodups.txt" > "/tmp/tmpdup9pwps/inter.pairs.txt" 2021-09-12 20:42:12,327 INFO SimpleSubprocess MakeInterPairs - 0:17:44 2021-09-12 20:42:12,344 DEBUG SimpleSubprocess cp "/tmp/tmpdup9pwps/inter.pairs.txt" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter.pairs.txt" 2021-09-12 20:43:50,467 INFO SimpleSubprocess CopyFiles - 0:01:38 2021-09-12 20:43:53,313 INFO Pairs2Cool Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter.pairs.txt 2021-09-12 20:43:53,313 INFO Pairs2Cool Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_5kb.cool 2021-09-12 20:43:53,313 INFO Pairs2Cool Genome assembly: mm10 2021-09-12 20:43:53,313 INFO Pairs2Cool Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-12 20:43:53,313 INFO Pairs2Cool Resolution [bp]: 5000 2021-09-12 20:43:53,407 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/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter.pairs.txt" "/tmp/tmp7a3icb73/inter_no_balanced.cool" 2021-09-12 21:02:57,484 INFO SimpleSubprocess MakeCool - 0:19:04 2021-09-12 21:02:57,484 DEBUG SimpleSubprocess cp "/tmp/tmp7a3icb73/inter_no_balanced.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_5kb.cool" 2021-09-12 21:02:57,947 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-12 21:02:58,026 INFO Pairs2Cool Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter.pairs.txt 2021-09-12 21:02:58,027 INFO Pairs2Cool Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_10kb.cool 2021-09-12 21:02:58,027 INFO Pairs2Cool Genome assembly: mm10 2021-09-12 21:02:58,027 INFO Pairs2Cool Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-12 21:02:58,027 INFO Pairs2Cool Resolution [bp]: 10000 2021-09-12 21:02:58,124 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/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter.pairs.txt" "/tmp/tmpxb0fpc08/inter_no_balanced.cool" 2021-09-12 21:20:33,904 INFO SimpleSubprocess MakeCool - 0:17:35 2021-09-12 21:20:33,904 DEBUG SimpleSubprocess cp "/tmp/tmpxb0fpc08/inter_no_balanced.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_10kb.cool" 2021-09-12 21:20:34,280 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-12 21:20:34,362 INFO Pairs2Cool Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter.pairs.txt 2021-09-12 21:20:34,362 INFO Pairs2Cool Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_20kb.cool 2021-09-12 21:20:34,362 INFO Pairs2Cool Genome assembly: mm10 2021-09-12 21:20:34,363 INFO Pairs2Cool Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-12 21:20:34,363 INFO Pairs2Cool Resolution [bp]: 20000 2021-09-12 21:20:34,394 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/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter.pairs.txt" "/tmp/tmptv30x843/inter_no_balanced.cool" 2021-09-12 21:36:59,784 INFO SimpleSubprocess MakeCool - 0:16:25 2021-09-12 21:36:59,784 DEBUG SimpleSubprocess cp "/tmp/tmptv30x843/inter_no_balanced.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_20kb.cool" 2021-09-12 21:37:00,070 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-12 21:37:00,109 INFO Pairs2Cool Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter.pairs.txt 2021-09-12 21:37:00,109 INFO Pairs2Cool Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_25kb.cool 2021-09-12 21:37:00,109 INFO Pairs2Cool Genome assembly: mm10 2021-09-12 21:37:00,109 INFO Pairs2Cool Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-12 21:37:00,109 INFO Pairs2Cool Resolution [bp]: 25000 2021-09-12 21:37:00,164 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/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter.pairs.txt" "/tmp/tmpz_r0oe4j/inter_no_balanced.cool" 2021-09-12 21:52:44,359 INFO SimpleSubprocess MakeCool - 0:15:44 2021-09-12 21:52:44,359 DEBUG SimpleSubprocess cp "/tmp/tmpz_r0oe4j/inter_no_balanced.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_25kb.cool" 2021-09-12 21:52:44,607 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-12 21:52:44,641 INFO Pairs2Cool Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter.pairs.txt 2021-09-12 21:52:44,641 INFO Pairs2Cool Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_50kb.cool 2021-09-12 21:52:44,641 INFO Pairs2Cool Genome assembly: mm10 2021-09-12 21:52:44,641 INFO Pairs2Cool Chrom sizes file path: /Data/DataBases/mm10/mm10_canonic.chrom.sizes 2021-09-12 21:52:44,641 INFO Pairs2Cool Resolution [bp]: 50000 2021-09-12 21:52:44,699 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/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter.pairs.txt" "/tmp/tmpgjjqyj_y/inter_no_balanced.cool" 2021-09-12 22:07:13,769 INFO SimpleSubprocess MakeCool - 0:14:29 2021-09-12 22:07:13,770 DEBUG SimpleSubprocess cp "/tmp/tmpgjjqyj_y/inter_no_balanced.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_50kb.cool" 2021-09-12 22:07:13,953 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-12 22:07:14,035 INFO CTaleNormalize Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_5kb.cool 2021-09-12 22:07:14,035 INFO CTaleNormalize Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_5kb.cool 2021-09-12 22:07:14,035 INFO CTaleNormalize Capture: chrX:50,550,000-50,675,000 2021-09-12 22:07:14,081 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_5kb.cool" "/tmp/tmp5nt22id4/inter.cool" 2021-09-12 22:07:14,501 INFO SimpleSubprocess TempFiles - 0:00:00 2021-09-12 22:07:14,501 DEBUG SimpleSubprocess ctale_normalize "/tmp/tmp5nt22id4/inter.cool" "chrX:50,550,000-50,675,000" 2021-09-12 22:07:33,217 INFO SimpleSubprocess NormalizeCool - 0:00:18 2021-09-12 22:07:33,217 DEBUG SimpleSubprocess cp "/tmp/tmp5nt22id4/inter.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_5kb.cool" 2021-09-12 22:07:33,638 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-12 22:07:33,705 INFO CTaleNormalize Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_10kb.cool 2021-09-12 22:07:33,705 INFO CTaleNormalize Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_10kb.cool 2021-09-12 22:07:33,705 INFO CTaleNormalize Capture: chrX:50,550,000-50,675,000 2021-09-12 22:07:33,773 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_10kb.cool" "/tmp/tmp5zpjax69/inter.cool" 2021-09-12 22:07:34,122 INFO SimpleSubprocess TempFiles - 0:00:00 2021-09-12 22:07:34,123 DEBUG SimpleSubprocess ctale_normalize "/tmp/tmp5zpjax69/inter.cool" "chrX:50,550,000-50,675,000" 2021-09-12 22:07:44,894 INFO SimpleSubprocess NormalizeCool - 0:00:10 2021-09-12 22:07:44,894 DEBUG SimpleSubprocess cp "/tmp/tmp5zpjax69/inter.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_10kb.cool" 2021-09-12 22:07:45,243 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-12 22:07:45,353 INFO CTaleNormalize Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_20kb.cool 2021-09-12 22:07:45,353 INFO CTaleNormalize Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_20kb.cool 2021-09-12 22:07:45,353 INFO CTaleNormalize Capture: chrX:50,550,000-50,675,000 2021-09-12 22:07:45,410 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_20kb.cool" "/tmp/tmpnm7k0w5m/inter.cool" 2021-09-12 22:07:45,721 INFO SimpleSubprocess TempFiles - 0:00:00 2021-09-12 22:07:45,721 DEBUG SimpleSubprocess ctale_normalize "/tmp/tmpnm7k0w5m/inter.cool" "chrX:50,550,000-50,675,000" 2021-09-12 22:07:54,000 INFO SimpleSubprocess NormalizeCool - 0:00:08 2021-09-12 22:07:54,001 DEBUG SimpleSubprocess cp "/tmp/tmpnm7k0w5m/inter.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_20kb.cool" 2021-09-12 22:07:54,312 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-12 22:07:54,385 INFO CTaleNormalize Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_25kb.cool 2021-09-12 22:07:54,386 INFO CTaleNormalize Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_25kb.cool 2021-09-12 22:07:54,386 INFO CTaleNormalize Capture: chrX:50,550,000-50,675,000 2021-09-12 22:07:54,410 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_25kb.cool" "/tmp/tmpfoljro40/inter.cool" 2021-09-12 22:07:54,685 INFO SimpleSubprocess TempFiles - 0:00:00 2021-09-12 22:07:54,685 DEBUG SimpleSubprocess ctale_normalize "/tmp/tmpfoljro40/inter.cool" "chrX:50,550,000-50,675,000" 2021-09-12 22:08:01,349 INFO SimpleSubprocess NormalizeCool - 0:00:06 2021-09-12 22:08:01,349 DEBUG SimpleSubprocess cp "/tmp/tmpfoljro40/inter.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_25kb.cool" 2021-09-12 22:08:01,598 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-12 22:08:01,663 INFO CTaleNormalize Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_50kb.cool 2021-09-12 22:08:01,663 INFO CTaleNormalize Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_50kb.cool 2021-09-12 22:08:01,664 INFO CTaleNormalize Capture: chrX:50,550,000-50,675,000 2021-09-12 22:08:01,722 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_50kb.cool" "/tmp/tmp4i2_hj_t/inter.cool" 2021-09-12 22:08:01,905 INFO SimpleSubprocess TempFiles - 0:00:00 2021-09-12 22:08:01,905 DEBUG SimpleSubprocess ctale_normalize "/tmp/tmp4i2_hj_t/inter.cool" "chrX:50,550,000-50,675,000" 2021-09-12 22:08:05,897 INFO SimpleSubprocess NormalizeCool - 0:00:03 2021-09-12 22:08:05,898 DEBUG SimpleSubprocess cp "/tmp/tmp4i2_hj_t/inter.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_50kb.cool" 2021-09-12 22:08:06,082 INFO SimpleSubprocess CopyFiles - 0:00:00 2021-09-12 22:08:06,134 DEBUG SimpleSubprocess echo > /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/vector.txt 2021-09-12 22:08:06,139 INFO SimpleSubprocess MakeVector - 0:00:00 2021-09-12 22:08:06,224 INFO AddWeight Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_5kb.cool 2021-09-12 22:08:06,224 INFO AddWeight Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/vector.txt 2021-09-12 22:08:06,224 INFO AddWeight Chromosome: chrX 2021-09-12 22:08:06,224 INFO AddWeight Resolution [bp]: 5000 2021-09-12 22:08:21,456 INFO AddWeight AddWeight successfully finished 2021-09-12 22:08:21,457 INFO AddWeight Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_10kb.cool 2021-09-12 22:08:21,457 INFO AddWeight Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/vector.txt 2021-09-12 22:08:21,457 INFO AddWeight Chromosome: chrX 2021-09-12 22:08:21,457 INFO AddWeight Resolution [bp]: 10000 2021-09-12 22:08:21,516 INFO AddWeight AddWeight successfully finished 2021-09-12 22:08:21,517 INFO AddWeight Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_20kb.cool 2021-09-12 22:08:21,517 INFO AddWeight Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/vector.txt 2021-09-12 22:08:21,517 INFO AddWeight Chromosome: chrX 2021-09-12 22:08:21,517 INFO AddWeight Resolution [bp]: 20000 2021-09-12 22:08:21,554 INFO AddWeight AddWeight successfully finished 2021-09-12 22:08:21,554 INFO AddWeight Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_25kb.cool 2021-09-12 22:08:21,554 INFO AddWeight Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/vector.txt 2021-09-12 22:08:21,555 INFO AddWeight Chromosome: chrX 2021-09-12 22:08:21,555 INFO AddWeight Resolution [bp]: 25000 2021-09-12 22:08:21,586 INFO AddWeight AddWeight successfully finished 2021-09-12 22:08:21,586 INFO AddWeight Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_50kb.cool 2021-09-12 22:08:21,587 INFO AddWeight Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/vector.txt 2021-09-12 22:08:21,587 INFO AddWeight Chromosome: chrX 2021-09-12 22:08:21,587 INFO AddWeight Resolution [bp]: 50000 2021-09-12 22:08:21,609 INFO AddWeight AddWeight successfully finished 2021-09-12 22:08:21,616 INFO Vector2HiC Input file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter.hic 2021-09-12 22:08:21,616 INFO Vector2HiC Output file: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_norm.hic 2021-09-12 22:08:21,616 INFO Vector2HiC Vector: /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/vector.txt 2021-09-12 22:08:21,616 INFO Vector2HiC Threads: 10 2021-09-12 22:08:21,686 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter.hic" "/tmp/tmpfnrrse8u/inter.hic" 2021-09-12 22:08:36,919 INFO SimpleSubprocess TempFiles - 0:00:15 2021-09-12 22:08:36,920 INFO Vector2HiC Vector: vector c-tale_normalization chrX 5000 BP 2021-09-12 22:08:36,922 DEBUG SimpleSubprocess java -jar "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer/scripts/common/juicer_tools.jar" addNorm -j 10 "/tmp/tmpfnrrse8u/inter.hic" "/tmp/tmpfnrrse8u/vector.txt" 2021-09-12 22:08:40,804 INFO SimpleSubprocess NormalizeHiC - 0:00:03 2021-09-12 22:08:40,804 INFO Vector2HiC Vector: vector c-tale_normalization chrX 10000 BP 2021-09-12 22:08:40,805 DEBUG SimpleSubprocess java -jar "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer/scripts/common/juicer_tools.jar" addNorm -j 10 "/tmp/tmpfnrrse8u/inter.hic" "/tmp/tmpfnrrse8u/vector.txt" 2021-09-12 22:08:43,215 INFO SimpleSubprocess NormalizeHiC - 0:00:02 2021-09-12 22:08:43,215 INFO Vector2HiC Vector: vector c-tale_normalization chrX 20000 BP 2021-09-12 22:08:43,216 DEBUG SimpleSubprocess java -jar "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer/scripts/common/juicer_tools.jar" addNorm -j 10 "/tmp/tmpfnrrse8u/inter.hic" "/tmp/tmpfnrrse8u/vector.txt" 2021-09-12 22:08:44,230 INFO SimpleSubprocess NormalizeHiC - 0:00:01 2021-09-12 22:08:44,231 INFO Vector2HiC Vector: vector c-tale_normalization chrX 25000 BP 2021-09-12 22:08:44,231 DEBUG SimpleSubprocess java -jar "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer/scripts/common/juicer_tools.jar" addNorm -j 10 "/tmp/tmpfnrrse8u/inter.hic" "/tmp/tmpfnrrse8u/vector.txt" 2021-09-12 22:08:46,086 INFO SimpleSubprocess NormalizeHiC - 0:00:01 2021-09-12 22:08:46,086 INFO Vector2HiC Vector: vector c-tale_normalization chrX 50000 BP 2021-09-12 22:08:46,087 DEBUG SimpleSubprocess java -jar "/Data/UserData/FairWind/Ya.Cloud/core/pipeline/scripts/../juicer/scripts/common/juicer_tools.jar" addNorm -j 10 "/tmp/tmpfnrrse8u/inter.hic" "/tmp/tmpfnrrse8u/vector.txt" 2021-09-12 22:08:47,592 INFO SimpleSubprocess NormalizeHiC - 0:00:01 2021-09-12 22:08:47,592 DEBUG SimpleSubprocess cp "/tmp/tmpfnrrse8u/inter.hic" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_norm.hic" 2021-09-12 22:08:50,087 INFO SimpleSubprocess CopyFiles - 0:00:02 2021-09-12 22:08:50,538 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/merged_nodups.txt" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/merged_nodups.txt" 2021-09-12 22:49:48,884 INFO SimpleSubprocess CopyResult - 0:40:58 2021-09-12 22:49:48,997 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter.pairs.txt" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/inter.pairs.txt" 2021-09-12 22:53:19,782 INFO SimpleSubprocess CopyResult - 0:03:30 2021-09-12 22:53:19,783 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/vector.txt" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/vector.txt" 2021-09-12 22:53:19,931 INFO SimpleSubprocess CopyResult - 0:00:00 2021-09-12 22:53:19,931 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_norm.hic" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/inter.hic" 2021-09-12 22:54:04,706 INFO SimpleSubprocess CopyResult - 0:00:44 2021-09-12 22:54:04,706 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter.txt" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/inter_statistics.txt" 2021-09-12 22:54:04,758 INFO SimpleSubprocess CopyResult - 0:00:00 2021-09-12 22:54:04,759 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_5kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/inter_no_balanced_5kb.cool" 2021-09-12 22:54:12,987 INFO SimpleSubprocess CopyResult - 0:00:08 2021-09-12 22:54:12,987 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_5kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/inter_5kb.cool" 2021-09-12 22:54:21,069 INFO SimpleSubprocess CopyResult - 0:00:08 2021-09-12 22:54:21,070 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_10kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/inter_no_balanced_10kb.cool" 2021-09-12 22:54:28,069 INFO SimpleSubprocess CopyResult - 0:00:06 2021-09-12 22:54:28,070 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_10kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/inter_10kb.cool" 2021-09-12 22:54:33,179 INFO SimpleSubprocess CopyResult - 0:00:05 2021-09-12 22:54:33,179 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_20kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/inter_no_balanced_20kb.cool" 2021-09-12 22:54:37,237 INFO SimpleSubprocess CopyResult - 0:00:04 2021-09-12 22:54:37,237 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_20kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/inter_20kb.cool" 2021-09-12 22:54:41,940 INFO SimpleSubprocess CopyResult - 0:00:04 2021-09-12 22:54:41,940 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_25kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/inter_no_balanced_25kb.cool" 2021-09-12 22:54:44,737 INFO SimpleSubprocess CopyResult - 0:00:02 2021-09-12 22:54:44,737 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_25kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/inter_25kb.cool" 2021-09-12 22:54:48,741 INFO SimpleSubprocess CopyResult - 0:00:04 2021-09-12 22:54:48,741 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_no_balanced_50kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/inter_no_balanced_50kb.cool" 2021-09-12 22:54:51,559 INFO SimpleSubprocess CopyResult - 0:00:02 2021-09-12 22:54:51,559 DEBUG SimpleSubprocess cp "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__/aligned/inter_50kb.cool" "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/inter_50kb.cool" 2021-09-12 22:54:54,299 INFO SimpleSubprocess CopyResult - 0:00:02 2021-09-12 22:54:54,746 DEBUG SimpleSubprocess rm -rf "/Data/NGS_Data/20210714_INC_COST_3DBenchmark/Project/SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097/__temp__" 2021-09-12 22:55:46,725 INFO SimpleSubprocess RemoveTemp - 0:00:51 2021-09-12 22:55:46,726 INFO BenchmarkPipeline 'SRR6129090-SRR6129091-SRR6129092-SRR6129093-SRR6129094-SRR6129095-SRR6129096-SRR6129097' FINISHED, SUMMARY TIME - 2 days, 7:58:18