[2019-11-07T22:48Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:48Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:48Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:48Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:48Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 171, 212)
[2019-11-07T22:48Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 362)
[2019-11-07T22:48Z] [M::mem_pestat] mean and std.dev: (177.44, 55.18)
[2019-11-07T22:48Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 437)
[2019-11-07T22:48Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:48Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:48Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:48Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:48Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:48Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:48Z] [M::mem_pestat] mean and std.dev: (176.99, 55.69)
[2019-11-07T22:48Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:48Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:48Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:48Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:48Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:48Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 171, 212)
[2019-11-07T22:48Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 362)
[2019-11-07T22:48Z] [M::mem_pestat] mean and std.dev: (177.25, 55.40)
[2019-11-07T22:48Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 437)
[2019-11-07T22:48Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:48Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:49Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 172, 213)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:49Z] [M::mem_pestat] mean and std.dev: (177.79, 55.47)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:49Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 172, 213)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:49Z] [M::mem_pestat] mean and std.dev: (178.08, 55.59)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:49Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:49Z] [M::mem_pestat] mean and std.dev: (176.96, 55.44)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:49Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:49Z] [M::mem_pestat] mean and std.dev: (176.81, 55.47)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:49Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 172, 213)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:49Z] [M::mem_pestat] mean and std.dev: (178.15, 55.46)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:49Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:49Z] [M::mem_pestat] mean and std.dev: (177.00, 55.42)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:49Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 171, 212)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 362)
[2019-11-07T22:49Z] [M::mem_pestat] mean and std.dev: (177.36, 55.24)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 437)
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:49Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 172, 213)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:49Z] [M::mem_pestat] mean and std.dev: (178.23, 55.84)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:49Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 172, 213)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:49Z] [M::mem_pestat] mean and std.dev: (177.86, 55.43)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:49Z] [main] Version: 0.7.17-r1188
[2019-11-07T22:49Z] [main] CMD: /isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/galaxy/../anaconda/bin/bwa mem -c 250 -M -t 16 -R @RG\tID:CTRL-F-021218\tPL:illumina\tPU:CTRL-F-021218\tSM:CTRL-F-021218 -v 1 /isilon/R_and_D/user_folders/Yi/SysInstall/bcbio/stable/genomes/Hsapiens/GRCh37/bwa/GRCh37.fa /dev/fd/63 /dev/fd/62
[2019-11-07T22:49Z] [main] Real time: 166.955 sec; CPU: 2553.965 sec
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:49Z] [M::mem_pestat] (25, 50, 75) percentile: (139, 173, 214)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:49Z] [M::mem_pestat] mean and std.dev: (178.75, 54.76)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 439)
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:49Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:49Z] [M::mem_pestat] mean and std.dev: (176.95, 55.47)
[2019-11-07T22:49Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:49Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:49Z] [main] Version: 0.7.17-r1188
[2019-11-07T22:49Z] [main] CMD: /isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/galaxy/../anaconda/bin/bwa mem -c 250 -M -t 16 -R @RG\tID:CTRL-F-021218\tPL:illumina\tPU:CTRL-F-021218\tSM:CTRL-F-021218 -v 1 /isilon/R_and_D/user_folders/Yi/SysInstall/bcbio/stable/genomes/Hsapiens/GRCh37/bwa/GRCh37.fa /dev/fd/63 /dev/fd/62
[2019-11-07T22:49Z] [main] Real time: 172.303 sec; CPU: 2642.290 sec
[2019-11-07T22:49Z] [bam_sort_core] merging from 0 files and 16 in-memory blocks...
[2019-11-07T22:49Z] [bam_sort_core] merging from 0 files and 16 in-memory blocks...
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:50Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:50Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 171, 212)
[2019-11-07T22:50Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 362)
[2019-11-07T22:50Z] [M::mem_pestat] mean and std.dev: (177.55, 55.23)
[2019-11-07T22:50Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 437)
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:50Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:50Z] [M::mem_pestat] (25, 50, 75) percentile: (138, 172, 213)
[2019-11-07T22:50Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 363)
[2019-11-07T22:50Z] [M::mem_pestat] mean and std.dev: (178.50, 55.40)
[2019-11-07T22:50Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 438)
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:50Z] [main] Version: 0.7.17-r1188
[2019-11-07T22:50Z] [main] CMD: /isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/galaxy/../anaconda/bin/bwa mem -c 250 -M -t 16 -R @RG\tID:CTRL-F-021218\tPL:illumina\tPU:CTRL-F-021218\tSM:CTRL-F-021218 -v 1 /isilon/R_and_D/user_folders/Yi/SysInstall/bcbio/stable/genomes/Hsapiens/GRCh37/bwa/GRCh37.fa /dev/fd/63 /dev/fd/62
[2019-11-07T22:50Z] [main] Real time: 189.354 sec; CPU: 2927.593 sec
[2019-11-07T22:50Z] Aligning lane CTRL-F-021218 with bwa aligner
[2019-11-07T22:50Z] Aligning lane CTRL-F-021218 with bwa aligner
[2019-11-07T22:50Z] bwa mem alignment from fastq: CTRL-F-021218
[2019-11-07T22:50Z] [bam_sort_core] merging from 0 files and 16 in-memory blocks...
[2019-11-07T22:50Z] bwa mem alignment from fastq: CTRL-F-021218
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:50Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:50Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 171, 213)
[2019-11-07T22:50Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:50Z] [M::mem_pestat] mean and std.dev: (177.72, 55.73)
[2019-11-07T22:50Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:50Z] Aligning lane CTRL-F-021218 with bwa aligner
[2019-11-07T22:50Z] bwa mem alignment from fastq: CTRL-F-021218
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:50Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:50Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 171, 212)
[2019-11-07T22:50Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 362)
[2019-11-07T22:50Z] [M::mem_pestat] mean and std.dev: (177.33, 55.33)
[2019-11-07T22:50Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 437)
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:50Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:50Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 170, 211)
[2019-11-07T22:50Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 361)
[2019-11-07T22:50Z] [M::mem_pestat] mean and std.dev: (176.10, 55.26)
[2019-11-07T22:50Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 436)
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:50Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:50Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 172, 213)
[2019-11-07T22:50Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:50Z] [M::mem_pestat] mean and std.dev: (178.18, 55.50)
[2019-11-07T22:50Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:50Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:50Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 172, 213)
[2019-11-07T22:50Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:50Z] [M::mem_pestat] mean and std.dev: (177.81, 55.38)
[2019-11-07T22:50Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:50Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:51Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:51Z] [M::mem_pestat] mean and std.dev: (177.11, 55.50)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:51Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:51Z] [M::mem_pestat] mean and std.dev: (177.25, 55.80)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:51Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:51Z] [M::mem_pestat] mean and std.dev: (177.15, 55.60)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:51Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 172, 213)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:51Z] [M::mem_pestat] mean and std.dev: (177.86, 55.33)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:51Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 170, 211)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 361)
[2019-11-07T22:51Z] [M::mem_pestat] mean and std.dev: (176.52, 55.36)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 436)
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:51Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:51Z] [M::mem_pestat] mean and std.dev: (177.31, 55.44)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:51Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 172, 213)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:51Z] [M::mem_pestat] mean and std.dev: (178.28, 55.74)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:51Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:51Z] [M::mem_pestat] mean and std.dev: (176.92, 55.54)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:51Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:51Z] [M::mem_pestat] mean and std.dev: (177.17, 55.59)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:51Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:51Z] [M::mem_pestat] mean and std.dev: (176.99, 55.44)
[2019-11-07T22:51Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:51Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:52Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 172, 212)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 362)
[2019-11-07T22:52Z] [M::mem_pestat] mean and std.dev: (177.73, 55.29)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 437)
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:52Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:52Z] [M::mem_pestat] mean and std.dev: (177.32, 55.47)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:52Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:52Z] [M::mem_pestat] mean and std.dev: (176.90, 55.80)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] analyzing insert size distribution for orientation RR...
[2019-11-07T22:52Z] [M::mem_pestat] (25, 50, 75) percentile: (435, 456, 526)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (253, 708)
[2019-11-07T22:52Z] [M::mem_pestat] mean and std.dev: (510.14, 59.72)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for proper pairs: (162, 799)
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RR
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:52Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 172, 213)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:52Z] [M::mem_pestat] mean and std.dev: (177.92, 55.34)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:52Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:52Z] [M::mem_pestat] mean and std.dev: (177.26, 55.61)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:52Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:52Z] [M::mem_pestat] mean and std.dev: (177.41, 55.62)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:52Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 172, 213)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:52Z] [M::mem_pestat] mean and std.dev: (177.66, 55.62)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:52Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 171, 213)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:52Z] [M::mem_pestat] mean and std.dev: (177.65, 55.53)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:52Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 170, 212)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:52Z] [M::mem_pestat] mean and std.dev: (176.51, 55.43)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:52Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:52Z] [M::mem_pestat] mean and std.dev: (177.32, 55.54)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:52Z] [main] Version: 0.7.17-r1188
[2019-11-07T22:52Z] [main] CMD: /isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/galaxy/../anaconda/bin/bwa mem -c 250 -M -t 16 -R @RG\tID:CTRL-F-021218\tPL:illumina\tPU:CTRL-F-021218\tSM:CTRL-F-021218 -v 1 /isilon/R_and_D/user_folders/Yi/SysInstall/bcbio/stable/genomes/Hsapiens/GRCh37/bwa/GRCh37.fa /dev/fd/63 /dev/fd/62
[2019-11-07T22:52Z] [main] Real time: 157.533 sec; CPU: 2425.116 sec
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:52Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:52Z] [M::mem_pestat] mean and std.dev: (176.93, 55.44)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:52Z] [bam_sort_core] merging from 0 files and 16 in-memory blocks...
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:52Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 171, 212)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 362)
[2019-11-07T22:52Z] [M::mem_pestat] mean and std.dev: (177.17, 55.10)
[2019-11-07T22:52Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 437)
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:52Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:52Z] [main] Version: 0.7.17-r1188
[2019-11-07T22:52Z] [main] CMD: /isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/galaxy/../anaconda/bin/bwa mem -c 250 -M -t 16 -R @RG\tID:CTRL-F-021218\tPL:illumina\tPU:CTRL-F-021218\tSM:CTRL-F-021218 -v 1 /isilon/R_and_D/user_folders/Yi/SysInstall/bcbio/stable/genomes/Hsapiens/GRCh37/bwa/GRCh37.fa /dev/fd/63 /dev/fd/62
[2019-11-07T22:52Z] [main] Real time: 166.813 sec; CPU: 2554.263 sec
[2019-11-07T22:53Z] [bam_sort_core] merging from 0 files and 16 in-memory blocks...
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:53Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:53Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 171, 213)
[2019-11-07T22:53Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:53Z] [M::mem_pestat] mean and std.dev: (177.56, 55.58)
[2019-11-07T22:53Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:53Z] Aligning lane CTRL-F-021218 with bwa aligner
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:53Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:53Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 171, 213)
[2019-11-07T22:53Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:53Z] [M::mem_pestat] mean and std.dev: (177.55, 55.77)
[2019-11-07T22:53Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:53Z] bwa mem alignment from fastq: CTRL-F-021218
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:53Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:53Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 170, 211)
[2019-11-07T22:53Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 361)
[2019-11-07T22:53Z] [M::mem_pestat] mean and std.dev: (176.41, 54.78)
[2019-11-07T22:53Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 436)
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:53Z] [main] Version: 0.7.17-r1188
[2019-11-07T22:53Z] [main] CMD: /isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/galaxy/../anaconda/bin/bwa mem -c 250 -M -t 16 -R @RG\tID:CTRL-F-021218\tPL:illumina\tPU:CTRL-F-021218\tSM:CTRL-F-021218 -v 1 /isilon/R_and_D/user_folders/Yi/SysInstall/bcbio/stable/genomes/Hsapiens/GRCh37/bwa/GRCh37.fa /dev/fd/63 /dev/fd/62
[2019-11-07T22:53Z] [main] Real time: 164.709 sec; CPU: 2518.605 sec
[2019-11-07T22:53Z] Aligning lane CTRL-F-021218 with bwa aligner
[2019-11-07T22:53Z] bwa mem alignment from fastq: CTRL-F-021218
[2019-11-07T22:53Z] [bam_sort_core] merging from 0 files and 16 in-memory blocks...
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:53Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:53Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:53Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:53Z] [M::mem_pestat] mean and std.dev: (176.77, 55.50)
[2019-11-07T22:53Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:53Z] Aligning lane CTRL-F-021218 with bwa aligner
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:53Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:53Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:53Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:53Z] [M::mem_pestat] mean and std.dev: (176.92, 55.53)
[2019-11-07T22:53Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:53Z] bwa mem alignment from fastq: CTRL-F-021218
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:53Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:53Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:53Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:53Z] [M::mem_pestat] mean and std.dev: (176.83, 55.56)
[2019-11-07T22:53Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:53Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:53Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 172, 213)
[2019-11-07T22:53Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:53Z] [M::mem_pestat] mean and std.dev: (177.75, 55.33)
[2019-11-07T22:53Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:53Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:54Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:54Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:54Z] [M::mem_pestat] mean and std.dev: (176.89, 55.63)
[2019-11-07T22:54Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:54Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 171, 212)
[2019-11-07T22:54Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 362)
[2019-11-07T22:54Z] [M::mem_pestat] mean and std.dev: (177.25, 55.35)
[2019-11-07T22:54Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 437)
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:54Z] [M::mem_pestat] (25, 50, 75) percentile: (138, 172, 213)
[2019-11-07T22:54Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 363)
[2019-11-07T22:54Z] [M::mem_pestat] mean and std.dev: (178.35, 55.18)
[2019-11-07T22:54Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 438)
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:54Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:54Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:54Z] [M::mem_pestat] mean and std.dev: (177.14, 55.56)
[2019-11-07T22:54Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:54Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:54Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:54Z] [M::mem_pestat] mean and std.dev: (177.32, 55.65)
[2019-11-07T22:54Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:54Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:54Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:54Z] [M::mem_pestat] mean and std.dev: (176.94, 55.73)
[2019-11-07T22:54Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:54Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 170, 211)
[2019-11-07T22:54Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 361)
[2019-11-07T22:54Z] [M::mem_pestat] mean and std.dev: (176.46, 55.49)
[2019-11-07T22:54Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 436)
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:54Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:54Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:54Z] [M::mem_pestat] mean and std.dev: (177.00, 55.43)
[2019-11-07T22:54Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:54Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 171, 212)
[2019-11-07T22:54Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 362)
[2019-11-07T22:54Z] [M::mem_pestat] mean and std.dev: (177.31, 55.29)
[2019-11-07T22:54Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 437)
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:54Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:55Z] [M::mem_pestat] (25, 50, 75) percentile: (135, 170, 212)
[2019-11-07T22:55Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 366)
[2019-11-07T22:55Z] [M::mem_pestat] mean and std.dev: (176.58, 55.71)
[2019-11-07T22:55Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 443)
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:55Z] [M::mem_pestat] (25, 50, 75) percentile: (135, 170, 212)
[2019-11-07T22:55Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 366)
[2019-11-07T22:55Z] [M::mem_pestat] mean and std.dev: (176.65, 55.92)
[2019-11-07T22:55Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 443)
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:55Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:55Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:55Z] [M::mem_pestat] mean and std.dev: (177.13, 55.46)
[2019-11-07T22:55Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:55Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 171, 212)
[2019-11-07T22:55Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 362)
[2019-11-07T22:55Z] [M::mem_pestat] mean and std.dev: (177.55, 55.38)
[2019-11-07T22:55Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 437)
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:55Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:55Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:55Z] [M::mem_pestat] mean and std.dev: (176.97, 55.67)
[2019-11-07T22:55Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:55Z] [M::mem_pestat] (25, 50, 75) percentile: (135, 170, 211)
[2019-11-07T22:55Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 363)
[2019-11-07T22:55Z] [M::mem_pestat] mean and std.dev: (176.29, 55.55)
[2019-11-07T22:55Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 439)
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:55Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:55Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:55Z] [M::mem_pestat] mean and std.dev: (177.09, 55.59)
[2019-11-07T22:55Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:55Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:55Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:55Z] [M::mem_pestat] mean and std.dev: (177.13, 55.31)
[2019-11-07T22:55Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:55Z] [M::mem_pestat] (25, 50, 75) percentile: (135, 170, 211)
[2019-11-07T22:55Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 363)
[2019-11-07T22:55Z] [M::mem_pestat] mean and std.dev: (176.21, 55.78)
[2019-11-07T22:55Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 439)
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:55Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:56Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:56Z] [M::mem_pestat] mean and std.dev: (177.03, 55.42)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:56Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:56Z] [M::mem_pestat] mean and std.dev: (177.02, 55.56)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:56Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:56Z] [M::mem_pestat] mean and std.dev: (177.48, 55.90)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:56Z] [main] Version: 0.7.17-r1188
[2019-11-07T22:56Z] [main] CMD: /isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/galaxy/../anaconda/bin/bwa mem -c 250 -M -t 16 -R @RG\tID:CTRL-F-021218\tPL:illumina\tPU:CTRL-F-021218\tSM:CTRL-F-021218 -v 1 /isilon/R_and_D/user_folders/Yi/SysInstall/bcbio/stable/genomes/Hsapiens/GRCh37/bwa/GRCh37.fa /dev/fd/63 /dev/fd/62
[2019-11-07T22:56Z] [main] Real time: 163.525 sec; CPU: 2499.410 sec
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:56Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:56Z] [M::mem_pestat] mean and std.dev: (177.19, 56.18)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:56Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 170, 211)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 361)
[2019-11-07T22:56Z] [M::mem_pestat] mean and std.dev: (176.31, 55.37)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 436)
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:56Z] [main] Version: 0.7.17-r1188
[2019-11-07T22:56Z] [main] CMD: /isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/galaxy/../anaconda/bin/bwa mem -c 250 -M -t 16 -R @RG\tID:CTRL-F-021218\tPL:illumina\tPU:CTRL-F-021218\tSM:CTRL-F-021218 -v 1 /isilon/R_and_D/user_folders/Yi/SysInstall/bcbio/stable/genomes/Hsapiens/GRCh37/bwa/GRCh37.fa /dev/fd/63 /dev/fd/62
[2019-11-07T22:56Z] [main] Real time: 171.321 sec; CPU: 2631.991 sec
[2019-11-07T22:56Z] [bam_sort_core] merging from 0 files and 16 in-memory blocks...
[2019-11-07T22:56Z] [bam_sort_core] merging from 0 files and 16 in-memory blocks...
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:56Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 170, 211)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 361)
[2019-11-07T22:56Z] [M::mem_pestat] mean and std.dev: (176.45, 55.50)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 436)
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:56Z] Aligning lane CTRL-F-021218 with bwa aligner
[2019-11-07T22:56Z] bwa mem alignment from fastq: CTRL-F-021218
[2019-11-07T22:56Z] Aligning lane CTRL-F-021218 with bwa aligner
[2019-11-07T22:56Z] bwa mem alignment from fastq: CTRL-F-021218
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:56Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 171, 212)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 362)
[2019-11-07T22:56Z] [M::mem_pestat] mean and std.dev: (177.38, 55.30)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 437)
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:56Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 172, 212)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 362)
[2019-11-07T22:56Z] [M::mem_pestat] mean and std.dev: (177.87, 54.86)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 437)
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:56Z] [main] Version: 0.7.17-r1188
[2019-11-07T22:56Z] [main] CMD: /isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/galaxy/../anaconda/bin/bwa mem -c 250 -M -t 16 -R @RG\tID:CTRL-F-021218\tPL:illumina\tPU:CTRL-F-021218\tSM:CTRL-F-021218 -v 1 /isilon/R_and_D/user_folders/Yi/SysInstall/bcbio/stable/genomes/Hsapiens/GRCh37/bwa/GRCh37.fa /dev/fd/63 /dev/fd/62
[2019-11-07T22:56Z] [main] Real time: 178.564 sec; CPU: 2720.360 sec
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:56Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 171, 213)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:56Z] [M::mem_pestat] mean and std.dev: (177.65, 55.62)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:56Z] [bam_sort_core] merging from 0 files and 16 in-memory blocks...
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:56Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 172, 213)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:56Z] [M::mem_pestat] mean and std.dev: (177.78, 55.78)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:56Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 172, 212)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 362)
[2019-11-07T22:56Z] [M::mem_pestat] mean and std.dev: (177.50, 55.12)
[2019-11-07T22:56Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 437)
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:56Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:57Z] [M::mem_pestat] (25, 50, 75) percentile: (134, 169, 210)
[2019-11-07T22:57Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 362)
[2019-11-07T22:57Z] [M::mem_pestat] mean and std.dev: (175.43, 55.72)
[2019-11-07T22:57Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 438)
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:57Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:57Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:57Z] [M::mem_pestat] mean and std.dev: (177.11, 55.49)
[2019-11-07T22:57Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:57Z] [M::mem_pestat] (25, 50, 75) percentile: (135, 169, 210)
[2019-11-07T22:57Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 360)
[2019-11-07T22:57Z] [M::mem_pestat] mean and std.dev: (175.38, 55.39)
[2019-11-07T22:57Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 435)
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:57Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 172, 213)
[2019-11-07T22:57Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:57Z] [M::mem_pestat] mean and std.dev: (177.94, 55.54)
[2019-11-07T22:57Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:57Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 171, 212)
[2019-11-07T22:57Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 362)
[2019-11-07T22:57Z] [M::mem_pestat] mean and std.dev: (177.45, 55.26)
[2019-11-07T22:57Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 437)
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:57Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 170, 211)
[2019-11-07T22:57Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 361)
[2019-11-07T22:57Z] [M::mem_pestat] mean and std.dev: (176.21, 55.44)
[2019-11-07T22:57Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 436)
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:57Z] [M::mem_pestat] (25, 50, 75) percentile: (137, 172, 213)
[2019-11-07T22:57Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 365)
[2019-11-07T22:57Z] [M::mem_pestat] mean and std.dev: (177.83, 55.50)
[2019-11-07T22:57Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 441)
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:57Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:57Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:57Z] [M::mem_pestat] mean and std.dev: (176.78, 55.64)
[2019-11-07T22:57Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:57Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:58Z] [M::mem_pestat] analyzing insert size distribution for orientation FF...
[2019-11-07T22:58Z] [M::mem_pestat] (25, 50, 75) percentile: (460, 497, 530)
[2019-11-07T22:58Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (320, 670)
[2019-11-07T22:58Z] [M::mem_pestat] mean and std.dev: (489.47, 41.95)
[2019-11-07T22:58Z] [M::mem_pestat] low and high boundaries for proper pairs: (250, 740)
[2019-11-07T22:58Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:58Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:58Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:58Z] [M::mem_pestat] mean and std.dev: (177.00, 55.55)
[2019-11-07T22:58Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:58Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:58Z] [M::mem_pestat] analyzing insert size distribution for orientation RR...
[2019-11-07T22:58Z] [M::mem_pestat] (25, 50, 75) percentile: (460, 509, 537)
[2019-11-07T22:58Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (306, 691)
[2019-11-07T22:58Z] [M::mem_pestat] mean and std.dev: (501.27, 61.04)
[2019-11-07T22:58Z] [M::mem_pestat] low and high boundaries for proper pairs: (229, 768)
[2019-11-07T22:58Z] [M::mem_pestat] skip orientation FF
[2019-11-07T22:58Z] [M::mem_pestat] skip orientation RR
[2019-11-07T22:58Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:58Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:58Z] [M::mem_pestat] (25, 50, 75) percentile: (136, 171, 212)
[2019-11-07T22:58Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 364)
[2019-11-07T22:58Z] [M::mem_pestat] mean and std.dev: (177.13, 55.57)
[2019-11-07T22:58Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 440)
[2019-11-07T22:58Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:58Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:58Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:58Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:58Z] [M::mem_pestat] (25, 50, 75) percentile: (135, 170, 211)
[2019-11-07T22:58Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 363)
[2019-11-07T22:58Z] [M::mem_pestat] mean and std.dev: (176.25, 55.71)
[2019-11-07T22:58Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 439)
[2019-11-07T22:58Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:58Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:58Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:58Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:58Z] [M::mem_pestat] (25, 50, 75) percentile: (134, 168, 210)
[2019-11-07T22:58Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 362)
[2019-11-07T22:58Z] [M::mem_pestat] mean and std.dev: (175.22, 55.68)
[2019-11-07T22:58Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 438)
[2019-11-07T22:58Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:58Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:58Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:58Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:58Z] [M::mem_pestat] (25, 50, 75) percentile: (135, 169, 211)
[2019-11-07T22:58Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 363)
[2019-11-07T22:58Z] [M::mem_pestat] mean and std.dev: (175.61, 55.63)
[2019-11-07T22:58Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 439)
[2019-11-07T22:58Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:58Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:58Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:58Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:58Z] [M::mem_pestat] (25, 50, 75) percentile: (138, 171, 212)
[2019-11-07T22:58Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 360)
[2019-11-07T22:58Z] [M::mem_pestat] mean and std.dev: (177.32, 54.82)
[2019-11-07T22:58Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 434)
[2019-11-07T22:58Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:58Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T22:58Z] [main] Version: 0.7.17-r1188
[2019-11-07T22:58Z] [main] CMD: /isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/galaxy/../anaconda/bin/bwa mem -c 250 -M -t 16 -R @RG\tID:CTRL-F-021218\tPL:illumina\tPU:CTRL-F-021218\tSM:CTRL-F-021218 -v 1 /isilon/R_and_D/user_folders/Yi/SysInstall/bcbio/stable/genomes/Hsapiens/GRCh37/bwa/GRCh37.fa /dev/fd/63 /dev/fd/62
[2019-11-07T22:58Z] [main] Real time: 142.986 sec; CPU: 2169.807 sec
[2019-11-07T22:58Z] [bam_sort_core] merging from 0 files and 16 in-memory blocks...
[2019-11-07T22:59Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T22:59Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T22:59Z] [M::mem_pestat] (25, 50, 75) percentile: (170, 209, 252)
[2019-11-07T22:59Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (6, 416)
[2019-11-07T22:59Z] [M::mem_pestat] mean and std.dev: (212.41, 65.50)
[2019-11-07T22:59Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 498)
[2019-11-07T22:59Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T22:59Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T23:00Z] [M::mem_pestat] skip orientation FF as there are not enough pairs
[2019-11-07T23:00Z] [M::mem_pestat] analyzing insert size distribution for orientation FR...
[2019-11-07T23:00Z] [M::mem_pestat] (25, 50, 75) percentile: (158, 203, 246)
[2019-11-07T23:00Z] [M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 422)
[2019-11-07T23:00Z] [M::mem_pestat] mean and std.dev: (202.38, 64.48)
[2019-11-07T23:00Z] [M::mem_pestat] low and high boundaries for proper pairs: (1, 510)
[2019-11-07T23:00Z] [M::mem_pestat] skip orientation RF as there are not enough pairs
[2019-11-07T23:00Z] [M::mem_pestat] skip orientation RR as there are not enough pairs
[2019-11-07T23:00Z] [main] Version: 0.7.17-r1188
[2019-11-07T23:00Z] [main] CMD: /isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/galaxy/../anaconda/bin/bwa mem -c 250 -M -t 16 -R @RG\tID:CTRL-F-021218\tPL:illumina\tPU:CTRL-F-021218\tSM:CTRL-F-021218 -v 1 /isilon/R_and_D/user_folders/Yi/SysInstall/bcbio/stable/genomes/Hsapiens/GRCh37/bwa/GRCh37.fa /dev/fd/63 /dev/fd/62
[2019-11-07T23:00Z] [main] Real time: 267.018 sec; CPU: 4122.838 sec
[2019-11-07T23:01Z] [bam_sort_core] merging from 0 files and 16 in-memory blocks...
[2019-11-07T23:01Z] multiprocessing: delayed_bam_merge
[2019-11-07T23:01Z] Ensure integrity of input merge BAM files
[2019-11-07T23:01Z] Ensure integrity of input merge BAM files
[2019-11-07T23:01Z] Ensure integrity of input merge BAM files
[2019-11-07T23:01Z] Ensure integrity of input merge BAM files
[2019-11-07T23:01Z] Ensure integrity of input merge BAM files
[2019-11-07T23:01Z] Ensure integrity of input merge BAM files
[2019-11-07T23:01Z] Ensure integrity of input merge BAM files
[2019-11-07T23:01Z] Ensure integrity of input merge BAM files
[2019-11-07T23:01Z] Ensure integrity of input merge BAM files
[2019-11-07T23:01Z] Ensure integrity of input merge BAM files
[2019-11-07T23:01Z] Ensure integrity of input merge BAM files
[2019-11-07T23:01Z] Merge bam files to CTRL-F-021218-sort.bam
[2019-11-07T23:01Z] [V] 1048576
[2019-11-07T23:01Z] [V] 1500218	06:20966400	MemUsage(size=4309.83,rss=1492.18,peak=4438.76)	AutoArrayMemUsage(memusage=3247.23,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:01Z] [V] 2097152
[2019-11-07T23:01Z] [V] 2250280	08:61917799	MemUsage(size=4309.83,rss=1564.27,peak=4438.76)	AutoArrayMemUsage(memusage=3247.23,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:01Z] [V] 3145728
[2019-11-07T23:01Z] [V] 3750138	13:99935299	MemUsage(size=4309.83,rss=1703.05,peak=4438.76)	AutoArrayMemUsage(memusage=3247.23,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:01Z] [V] 4194304
[2019-11-07T23:01Z] [V] 4499988	16:70562400	MemUsage(size=4309.83,rss=1767.72,peak=4438.76)	AutoArrayMemUsage(memusage=3248.32,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:01Z] [V] 5242880
[2019-11-07T23:01Z] [V] 5249495	19:24295800	MemUsage(size=4309.83,rss=1809.98,peak=4438.76)	AutoArrayMemUsage(memusage=3251.33,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:01Z] [V] 6291456
[2019-11-07T23:01Z] [V] 6748354	24:68468299	MemUsage(size=4309.83,rss=1856.1,peak=4438.76)	AutoArrayMemUsage(memusage=3251.33,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:01Z] [V] 7340032
[2019-11-07T23:01Z] [V] 7497629	27:25047400	MemUsage(size=4309.83,rss=1880.13,peak=4438.76)	AutoArrayMemUsage(memusage=3252.15,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:01Z] [V] 8388608
[2019-11-07T23:01Z] [V] 8997450	31:84227299	MemUsage(size=4309.83,rss=1915.71,peak=4438.76)	AutoArrayMemUsage(memusage=3255.43,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:01Z] [V] 9437184
[2019-11-07T23:01Z] [V] 9747129	34:54481299	MemUsage(size=4309.83,rss=1915.71,peak=4438.76)	AutoArrayMemUsage(memusage=3255.43,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:01Z] [V] 10485760
[2019-11-07T23:01Z] [V] 10499307	37:30256599	MemUsage(size=4309.83,rss=1915.75,peak=4438.76)	AutoArrayMemUsage(memusage=3255.43,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:02Z] [V] 11534336
[2019-11-07T23:02Z] [V] 12006318	42:59611600	MemUsage(size=4309.9,rss=1916.91,peak=4438.76)	AutoArrayMemUsage(memusage=3255.56,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:02Z] [V] 12582912
[2019-11-07T23:02Z] [V] 12759729	45:31857500	MemUsage(size=4309.9,rss=1917.03,peak=4438.76)	AutoArrayMemUsage(memusage=3255.56,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:02Z] [V] 13631488
[2019-11-07T23:02Z] [V] 14266479	50:71693199	MemUsage(size=4309.9,rss=1917.04,peak=4438.76)	AutoArrayMemUsage(memusage=3255.57,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:02Z] [V] 14680064
[2019-11-07T23:02Z] [V] 15019745	53:37043200	MemUsage(size=4309.9,rss=1917.13,peak=4438.76)	AutoArrayMemUsage(memusage=3255.57,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:02Z] [V] 15728640
[2019-11-07T23:02Z] [V] 15772488	56:06083600	MemUsage(size=4309.9,rss=1917.18,peak=4438.76)	AutoArrayMemUsage(memusage=3255.57,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:02Z] [V] 16777216
[2019-11-07T23:02Z] [V] 17277967	01:01:45272500	MemUsage(size=4309.9,rss=1917.21,peak=4438.76)	AutoArrayMemUsage(memusage=3255.57,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:02Z] [V] 17825792
[2019-11-07T23:02Z] [V] 18031146	01:03:48233299	MemUsage(size=4309.9,rss=1917.21,peak=4438.76)	AutoArrayMemUsage(memusage=3255.57,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:02Z] [V] 18874368
[2019-11-07T23:02Z] [V] 19537350	01:08:46570900	MemUsage(size=4309.9,rss=1917.22,peak=4438.76)	AutoArrayMemUsage(memusage=3255.57,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:02Z] [V] 19922944
[2019-11-07T23:02Z] [V] 20290025	01:11:23358500	MemUsage(size=4309.9,rss=1917.25,peak=4438.76)	AutoArrayMemUsage(memusage=3255.57,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:02Z] [V] 20971520
[2019-11-07T23:02Z] [V] 21041685	01:13:87169500	MemUsage(size=4309.9,rss=1917.55,peak=4438.76)	AutoArrayMemUsage(memusage=3255.57,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:02Z] [V] 22020096
[2019-11-07T23:02Z] [V] 22544908	01:19:21089399	MemUsage(size=4309.9,rss=1917.76,peak=4438.76)	AutoArrayMemUsage(memusage=3255.57,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:02Z] [V] 23068672
[2019-11-07T23:02Z] [V] 23296319	01:21:89068699	MemUsage(size=4309.9,rss=1917.79,peak=4438.76)	AutoArrayMemUsage(memusage=3255.57,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:02Z] [V] 24117248
[2019-11-07T23:02Z] [V] 24799100	01:27:19255200	MemUsage(size=4309.9,rss=1917.83,peak=4438.76)	AutoArrayMemUsage(memusage=3255.57,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:02Z] [V] 25165824
[2019-11-07T23:02Z] [V] 25550216	01:29:92455800	MemUsage(size=4309.9,rss=1917.83,peak=4438.76)	AutoArrayMemUsage(memusage=3255.57,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:02Z] [V] 26214400
[2019-11-07T23:02Z] [V] 26301080	01:31:97673000	MemUsage(size=4309.9,rss=1917.84,peak=4438.76)	AutoArrayMemUsage(memusage=3255.57,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:02Z] [V] 27262976
[2019-11-07T23:02Z] [V] 27803243	01:37:22238299	MemUsage(size=4309.9,rss=1917.85,peak=4438.76)	AutoArrayMemUsage(memusage=3255.58,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:02Z] [V] 28311552
[2019-11-07T23:03Z] [V] 28554518	01:39:73191799	MemUsage(size=4309.9,rss=1917.85,peak=4438.76)	AutoArrayMemUsage(memusage=3255.58,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:03Z] [V] 29360128
[2019-11-07T23:03Z] [V] 30056895	01:45:09423599	MemUsage(size=4309.9,rss=1917.89,peak=4438.76)	AutoArrayMemUsage(memusage=3255.58,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:03Z] [V] 30408704
[2019-11-07T23:03Z] [V] 30805865	01:47:85455600	MemUsage(size=4309.9,rss=1917.92,peak=4438.76)	AutoArrayMemUsage(memusage=3255.58,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:03Z] [V] 31457280
[2019-11-07T23:03Z] [V] 31554890	01:50:53549800	MemUsage(size=4309.9,rss=1918.03,peak=4438.76)	AutoArrayMemUsage(memusage=3255.58,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:03Z] [V] 32505856
[2019-11-07T23:03Z] [V] 33052723	01:55:94355099	MemUsage(size=4309.9,rss=1918.06,peak=4438.76)	AutoArrayMemUsage(memusage=3255.58,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:03Z] [V] 33554432
[2019-11-07T23:03Z] [V] 33801315	01:58:66118500	MemUsage(size=4309.9,rss=1918.07,peak=4438.76)	AutoArrayMemUsage(memusage=3255.58,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:03Z] [V] 34603008
[2019-11-07T23:03Z] [V] 35298440	02:03:49809600	MemUsage(size=4309.9,rss=1918.07,peak=4438.76)	AutoArrayMemUsage(memusage=3255.58,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:03Z] [V] 35651584
[2019-11-07T23:03Z] [V] 36046417	02:06:22522999	MemUsage(size=4309.9,rss=1918.08,peak=4438.76)	AutoArrayMemUsage(memusage=3255.58,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:03Z] [V] 36700160
[2019-11-07T23:03Z] [V] 36794689	02:08:94711200	MemUsage(size=4309.9,rss=1918.1,peak=4438.76)	AutoArrayMemUsage(memusage=3255.58,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:03Z] [V] 37748736
[2019-11-07T23:03Z] [V] 38291203	02:14:49171599	MemUsage(size=4309.9,rss=1918.15,peak=4438.76)	AutoArrayMemUsage(memusage=3255.58,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:03Z] [V] 38797312
[2019-11-07T23:03Z] [V] 39039912	02:17:24599200	MemUsage(size=4309.9,rss=1918.15,peak=4438.76)	AutoArrayMemUsage(memusage=3255.58,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:03Z] [V] 39845888
[2019-11-07T23:03Z] [V] 40539152	02:23:12084999	MemUsage(size=4309.9,rss=1918.16,peak=4438.76)	AutoArrayMemUsage(memusage=3255.58,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:03Z] [V] 40894464
[2019-11-07T23:03Z] [V] 41291270	02:25:71889500	MemUsage(size=4309.9,rss=1918.29,peak=4438.76)	AutoArrayMemUsage(memusage=3255.58,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:03Z] [V] 41943040
[2019-11-07T23:03Z] [V] 42043306	02:28:55955399	MemUsage(size=4309.9,rss=1918.33,peak=4438.76)	AutoArrayMemUsage(memusage=3255.58,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:03Z] [V] 42991616
[2019-11-07T23:03Z] [V] 43547236	02:33:39057700	MemUsage(size=4309.9,rss=1918.45,peak=4438.76)	AutoArrayMemUsage(memusage=3255.59,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:03Z] [V] 44040192
[2019-11-07T23:03Z] [V] 44299056	02:36:03899699	MemUsage(size=4309.9,rss=1918.45,peak=4438.76)	AutoArrayMemUsage(memusage=3255.59,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:03Z] [V] 45088768
[2019-11-07T23:04Z] [V] 45801901	02:41:53286299	MemUsage(size=4309.9,rss=1918.49,peak=4438.76)	AutoArrayMemUsage(memusage=3255.59,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:04Z] [V] 46137344
[2019-11-07T23:04Z] [V] 46553103	02:44:27036000	MemUsage(size=4309.9,rss=1918.49,peak=4438.76)	AutoArrayMemUsage(memusage=3255.59,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:04Z] [V] 47185920
[2019-11-07T23:04Z] [V] 47304289	02:47:08308400	MemUsage(size=4309.9,rss=1918.5,peak=4438.76)	AutoArrayMemUsage(memusage=3255.59,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:04Z] [V] 48234496
[2019-11-07T23:04Z] [V] 48807627	02:52:54209299	MemUsage(size=4309.9,rss=1918.52,peak=4438.76)	AutoArrayMemUsage(memusage=3255.59,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:04Z] [V] 49283072
[2019-11-07T23:04Z] [V] 49559118	02:55:31915900	MemUsage(size=4309.9,rss=1918.52,peak=4438.76)	AutoArrayMemUsage(memusage=3255.59,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:04Z] [V] 50331648
[2019-11-07T23:04Z] [V] 51061468	03:00:69666300	MemUsage(size=4309.9,rss=1918.54,peak=4438.76)	AutoArrayMemUsage(memusage=3255.59,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:04Z] [V] 51380224
[2019-11-07T23:04Z] [V] 51812108	03:03:39921799	MemUsage(size=4309.9,rss=1918.57,peak=4438.76)	AutoArrayMemUsage(memusage=3255.59,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:04Z] [V] 52428800
[2019-11-07T23:04Z] [V] 52562748	03:05:43862100	MemUsage(size=4309.9,rss=1918.61,peak=4438.76)	AutoArrayMemUsage(memusage=3255.59,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:04Z] [V] 53477376
[2019-11-07T23:04Z] [V] 54063659	03:10:40853799	MemUsage(size=4309.9,rss=1918.68,peak=4438.76)	AutoArrayMemUsage(memusage=3255.59,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:04Z] [V] 54525952
[2019-11-07T23:04Z] [V] 54813986	03:12:94665000	MemUsage(size=4309.9,rss=1918.68,peak=4438.76)	AutoArrayMemUsage(memusage=3255.59,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:04Z] [V] 55574528
[2019-11-07T23:04Z] [V] 56314026	03:18:25008099	MemUsage(size=4309.9,rss=1918.68,peak=4438.76)	AutoArrayMemUsage(memusage=3255.59,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:04Z] [V] 56623104
[2019-11-07T23:04Z] [V] 57063837	03:21:02875099	MemUsage(size=4309.9,rss=1918.68,peak=4438.76)	AutoArrayMemUsage(memusage=3255.59,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:04Z] [V] 57671680
[2019-11-07T23:04Z] [V] 57814027	03:23:73538899	MemUsage(size=4309.9,rss=1918.68,peak=4438.76)	AutoArrayMemUsage(memusage=3255.59,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:04Z] [V] 58720256
[2019-11-07T23:04Z] [V] 59314523	03:29:38624999	MemUsage(size=4309.9,rss=1918.69,peak=4438.76)	AutoArrayMemUsage(memusage=3255.6,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:04Z] [V] 59768832
[2019-11-07T23:04Z] [V] 60064926	03:32:16583399	MemUsage(size=4309.9,rss=1918.71,peak=4438.76)	AutoArrayMemUsage(memusage=3255.6,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:04Z] [V] 60817408
[2019-11-07T23:04Z] [V] 61568206	03:36:77290999	MemUsage(size=4328.93,rss=1937.02,peak=4438.76)	AutoArrayMemUsage(memusage=3256.72,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:04Z] [V] 61865984
[2019-11-07T23:05Z] [V] 62319781	03:39:50790299	MemUsage(size=4347.96,rss=1910.57,peak=4438.76)	AutoArrayMemUsage(memusage=3257.84,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:05Z] [V] 62914560
[2019-11-07T23:05Z] [V] 63071369	03:42:30776800	MemUsage(size=4347.96,rss=1910.65,peak=4438.76)	AutoArrayMemUsage(memusage=3257.84,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:05Z] [V] 63963136
[2019-11-07T23:05Z] [V] 64574064	03:47:82075499	MemUsage(size=4347.96,rss=1910.69,peak=4438.76)	AutoArrayMemUsage(memusage=3257.84,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:05Z] [V] 65011712
[2019-11-07T23:05Z] [V] 65325203	03:50:60836800	MemUsage(size=4347.96,rss=1910.7,peak=4438.76)	AutoArrayMemUsage(memusage=3257.84,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:05Z] [V] 66060288
[2019-11-07T23:05Z] [V] 66075329	03:53:44479899	MemUsage(size=4347.96,rss=1910.7,peak=4438.76)	AutoArrayMemUsage(memusage=3257.84,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:05Z] [V] 67108864
[2019-11-07T23:05Z] [V] 67576060	03:58:66234600	MemUsage(size=4347.96,rss=1910.9,peak=4438.76)	AutoArrayMemUsage(memusage=3257.84,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:05Z] [V] 68157440
[2019-11-07T23:05Z] [V] 68327410	04:01:31094200	MemUsage(size=4347.96,rss=1910.94,peak=4438.76)	AutoArrayMemUsage(memusage=3257.84,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:05Z] [V] 69206016
[2019-11-07T23:05Z] [V] 69830049	04:06:04336599	MemUsage(size=4347.96,rss=1910.96,peak=4438.76)	AutoArrayMemUsage(memusage=3257.84,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:05Z] [V] 70254592
[2019-11-07T23:05Z] [V] 70581887	04:08:79517100	MemUsage(size=4347.96,rss=1910.98,peak=4438.76)	AutoArrayMemUsage(memusage=3257.85,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:05Z] [V] 71303168
[2019-11-07T23:05Z] [V] 71333898	04:11:52951799	MemUsage(size=4347.96,rss=1911.17,peak=4438.76)	AutoArrayMemUsage(memusage=3257.85,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:05Z] [V] 72351744
[2019-11-07T23:05Z] [V] 72837820	04:16:75109400	MemUsage(size=4347.96,rss=1911.25,peak=4438.76)	AutoArrayMemUsage(memusage=3257.85,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:05Z] [V] 73400320
[2019-11-07T23:05Z] [V] 73589756	04:19:40599500	MemUsage(size=4347.96,rss=1911.25,peak=4438.76)	AutoArrayMemUsage(memusage=3257.85,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:05Z] [V] 74448896
[2019-11-07T23:05Z] [V] 75093441	04:24:85007400	MemUsage(size=4347.96,rss=1911.26,peak=4438.76)	AutoArrayMemUsage(memusage=3257.85,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:05Z] [V] 75497472
[2019-11-07T23:05Z] [V] 75844834	04:27:60884099	MemUsage(size=4347.96,rss=1911.28,peak=4438.76)	AutoArrayMemUsage(memusage=3257.85,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:05Z] [V] 76546048
[2019-11-07T23:05Z] [V] 76596069	04:30:15381000	MemUsage(size=4347.96,rss=1911.29,peak=4438.76)	AutoArrayMemUsage(memusage=3257.85,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:05Z] [V] 77594624
[2019-11-07T23:05Z] [V] 78099118	04:35:54068200	MemUsage(size=4347.96,rss=1911.29,peak=4438.76)	AutoArrayMemUsage(memusage=3257.85,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:05Z] [V] 78643200
[2019-11-07T23:05Z] [V] 78850835	04:37:62466100	MemUsage(size=4347.96,rss=1911.29,peak=4438.76)	AutoArrayMemUsage(memusage=3257.85,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:06Z] [V] 79691776
[2019-11-07T23:06Z] [V] 80354574	04:43:04106400	MemUsage(size=4347.96,rss=1911.31,peak=4438.76)	AutoArrayMemUsage(memusage=3257.85,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:06Z] [V] 80740352
[2019-11-07T23:06Z] [V] 81107536	04:45:64746999	MemUsage(size=4347.96,rss=1911.32,peak=4438.76)	AutoArrayMemUsage(memusage=3257.85,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:06Z] [V] 81788928
[2019-11-07T23:06Z] [V] 81860379	04:48:28922099	MemUsage(size=4347.96,rss=1911.34,peak=4438.76)	AutoArrayMemUsage(memusage=3257.85,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:06Z] [V] 82837504
[2019-11-07T23:06Z] [V] 83365912	04:53:67340999	MemUsage(size=4347.96,rss=1911.38,peak=4438.76)	AutoArrayMemUsage(memusage=3257.85,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:06Z] [V] 83886080
[2019-11-07T23:06Z] [V] 84118542	04:56:35840699	MemUsage(size=4347.96,rss=1911.38,peak=4438.76)	AutoArrayMemUsage(memusage=3257.85,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:06Z] [V] 84934656
[2019-11-07T23:06Z] [V] 85623524	05:01:77228900	MemUsage(size=4347.96,rss=1911.38,peak=4438.76)	AutoArrayMemUsage(memusage=3257.86,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:06Z] [V] 85983232
[2019-11-07T23:06Z] [V] 86375875	05:04:39081900	MemUsage(size=4347.96,rss=1911.39,peak=4438.76)	AutoArrayMemUsage(memusage=3257.86,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:06Z] [V] 87031808
[2019-11-07T23:06Z] [V] 87128090	05:06:42703199	MemUsage(size=4347.96,rss=1911.4,peak=4438.76)	AutoArrayMemUsage(memusage=3257.86,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:06Z] [V] 88080384
[2019-11-07T23:06Z] [V] 88633213	05:11:76552400	MemUsage(size=4347.96,rss=1911.42,peak=4438.76)	AutoArrayMemUsage(memusage=3257.86,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:06Z] [V] 89128960
[2019-11-07T23:06Z] [V] 89385676	05:14:43948199	MemUsage(size=4347.96,rss=1911.42,peak=4438.76)	AutoArrayMemUsage(memusage=3257.86,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:06Z] [V] 90177536
[2019-11-07T23:06Z] [V] 90892701	05:19:60184500	MemUsage(size=4347.96,rss=1911.43,peak=4438.76)	AutoArrayMemUsage(memusage=3257.86,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:06Z] [V] 91226112
[2019-11-07T23:06Z] [V] 91646779	05:22:24230699	MemUsage(size=4347.98,rss=1916.93,peak=4475.98)	AutoArrayMemUsage(memusage=3257.89,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:06Z] [V] 92274688
[2019-11-07T23:06Z] [V] 92400985	05:24:92727600	MemUsage(size=4347.98,rss=1917.11,peak=4475.98)	AutoArrayMemUsage(memusage=3257.89,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:06Z] [V] 93323264
[2019-11-07T23:06Z] [V] 93909075	05:30:44486399	MemUsage(size=4347.98,rss=1917.26,peak=4475.98)	AutoArrayMemUsage(memusage=3257.89,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:06Z] [V] 94371840
[2019-11-07T23:06Z] [V] 94662938	05:33:19579499	MemUsage(size=4347.98,rss=1917.26,peak=4475.98)	AutoArrayMemUsage(memusage=3257.89,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:06Z] [V] 95420416
[2019-11-07T23:06Z] [V] 96170020	05:37:73389800	MemUsage(size=4347.98,rss=1917.37,peak=4475.98)	AutoArrayMemUsage(memusage=3257.89,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:06Z] [V] 96468992
[2019-11-07T23:07Z] [V] 96923568	05:40:18726199	MemUsage(size=4347.98,rss=1917.38,peak=4475.98)	AutoArrayMemUsage(memusage=3257.89,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:07Z] [V] 97517568
[2019-11-07T23:07Z] [V] 97677062	05:42:62314500	MemUsage(size=4347.98,rss=1917.38,peak=4475.98)	AutoArrayMemUsage(memusage=3257.89,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:07Z] [V] 98566144
[2019-11-07T23:07Z] [V] 99184818	05:47:60579799	MemUsage(size=4347.98,rss=1917.39,peak=4475.98)	AutoArrayMemUsage(memusage=3257.89,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:07Z] [V] 99614720
[2019-11-07T23:07Z] [V] 99938668	05:50:06695100	MemUsage(size=4347.98,rss=1917.4,peak=4475.98)	AutoArrayMemUsage(memusage=3257.89,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:07Z] [V] 100663296
[2019-11-07T23:07Z] [V] 100690856	05:52:82369999	MemUsage(size=4347.98,rss=1917.41,peak=4475.98)	AutoArrayMemUsage(memusage=3257.89,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:07Z] [V] 101711872
[2019-11-07T23:07Z] [V] 102194000	05:58:12159500	MemUsage(size=4347.98,rss=1917.42,peak=4475.98)	AutoArrayMemUsage(memusage=3257.89,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:07Z] [V] 102760448
[2019-11-07T23:07Z] [V] 102945542	06:00:65366999	MemUsage(size=4347.98,rss=1917.42,peak=4475.98)	AutoArrayMemUsage(memusage=3257.89,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:07Z] [V] 103809024
[2019-11-07T23:07Z] [V] 104448586	06:05:18256800	MemUsage(size=4347.98,rss=1917.46,peak=4475.98)	AutoArrayMemUsage(memusage=3257.89,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:07Z] [V] 104857600
[2019-11-07T23:07Z] [V] 105199943	06:07:86682700	MemUsage(size=4347.98,rss=1917.46,peak=4475.98)	AutoArrayMemUsage(memusage=3257.89,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:07Z] [V] 105906176
[2019-11-07T23:07Z] [V] 105950905	06:10:42376000	MemUsage(size=4347.98,rss=1917.47,peak=4475.98)	AutoArrayMemUsage(memusage=3257.89,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:07Z] [V] 106954752
[2019-11-07T23:07Z] [V] 107452775	06:15:69849299	MemUsage(size=4347.98,rss=1917.48,peak=4475.98)	AutoArrayMemUsage(memusage=3257.9,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:07Z] [V] 108003328
[2019-11-07T23:07Z] [V] 108204202	06:18:54059200	MemUsage(size=4347.98,rss=1917.53,peak=4475.98)	AutoArrayMemUsage(memusage=3257.9,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:07Z] [V] 109051904
[2019-11-07T23:07Z] [V] 109706816	06:23:81614899	MemUsage(size=4347.98,rss=1917.53,peak=4475.98)	AutoArrayMemUsage(memusage=3257.9,peakmemusage=3454.73,maxmem=1.75922e+13)
[2019-11-07T23:07Z] [V] 110100480
[2019-11-07T23:07Z] [V] 110114725
[2019-11-07T23:07Z] [V] finished MemUsage(size=62.7266,rss=6.30859,peak=62.918)
[2019-11-07T23:07Z] [V] 110114725	06:24:85383500	MemUsage(size=4347.98,rss=1917.53,peak=4475.98)	AutoArrayMemUsage(memusage=3257.9,peakmemusage=3454.73,maxmem=1.75922e+13)	final
[2019-11-07T23:07Z] [V] flushing read ends lists...done.
[2019-11-07T23:07Z] [V] merging read ends lists/computing duplicates...done, time 05:21511899
[2019-11-07T23:07Z] [V] num dups 36886985
[2019-11-07T23:07Z] # bamsormadup
[2019-11-07T23:07Z] ##METRICS
[2019-11-07T23:07Z] LIBRARY	UNPAIRED_READS_EXAMINED	READ_PAIRS_EXAMINED	UNMAPPED_READS	UNPAIRED_READ_DUPLICATES	READ_PAIR_DUPLICATES	READ_PAIR_OPTICAL_DUPLICATES	PERCENT_DUPLICATION	ESTIMATED_LIBRARY_SIZE
[2019-11-07T23:07Z] Unknown Library	344558	54348441	376928	272413	18307286	33215	0.338284	61362246
[2019-11-07T23:07Z] ## HISTOGRAM
[2019-11-07T23:07Z] BIN	VALUE
[2019-11-07T23:07Z] 1	1.00038
[2019-11-07T23:07Z] 2	1.41296
[2019-11-07T23:07Z] 3	1.58312
[2019-11-07T23:07Z] 4	1.6533
[2019-11-07T23:07Z] 5	1.68224
[2019-11-07T23:07Z] 6	1.69418
[2019-11-07T23:07Z] 7	1.6991
[2019-11-07T23:07Z] 8	1.70114
[2019-11-07T23:07Z] 9	1.70197
[2019-11-07T23:07Z] 10	1.70232
[2019-11-07T23:07Z] 11	1.70246
[2019-11-07T23:07Z] 12	1.70252
[2019-11-07T23:07Z] 13	1.70254
[2019-11-07T23:07Z] 14	1.70255
[2019-11-07T23:07Z] 15	1.70256
[2019-11-07T23:07Z] 16	1.70256
[2019-11-07T23:07Z] 17	1.70256
[2019-11-07T23:07Z] 18	1.70256
[2019-11-07T23:07Z] 19	1.70256
[2019-11-07T23:07Z] 20	1.70256
[2019-11-07T23:07Z] 21	1.70256
[2019-11-07T23:07Z] 22	1.70256
[2019-11-07T23:07Z] 23	1.70256
[2019-11-07T23:07Z] 24	1.70256
[2019-11-07T23:07Z] 25	1.70256
[2019-11-07T23:07Z] 26	1.70256
[2019-11-07T23:07Z] 27	1.70256
[2019-11-07T23:07Z] 28	1.70256
[2019-11-07T23:07Z] 29	1.70256
[2019-11-07T23:07Z] 30	1.70256
[2019-11-07T23:07Z] 31	1.70256
[2019-11-07T23:07Z] 32	1.70256
[2019-11-07T23:07Z] 33	1.70256
[2019-11-07T23:07Z] 34	1.70256
[2019-11-07T23:07Z] 35	1.70256
[2019-11-07T23:07Z] 36	1.70256
[2019-11-07T23:07Z] 37	1.70256
[2019-11-07T23:07Z] 38	1.70256
[2019-11-07T23:07Z] 39	1.70256
[2019-11-07T23:07Z] 40	1.70256
[2019-11-07T23:07Z] 41	1.70256
[2019-11-07T23:07Z] 42	1.70256
[2019-11-07T23:07Z] 43	1.70256
[2019-11-07T23:07Z] 44	1.70256
[2019-11-07T23:07Z] 45	1.70256
[2019-11-07T23:07Z] 46	1.70256
[2019-11-07T23:07Z] 47	1.70256
[2019-11-07T23:07Z] 48	1.70256
[2019-11-07T23:07Z] 49	1.70256
[2019-11-07T23:07Z] 50	1.70256
[2019-11-07T23:07Z] 51	1.70256
[2019-11-07T23:07Z] 52	1.70256
[2019-11-07T23:07Z] 53	1.70256
[2019-11-07T23:07Z] 54	1.70256
[2019-11-07T23:07Z] 55	1.70256
[2019-11-07T23:07Z] 56	1.70256
[2019-11-07T23:07Z] 57	1.70256
[2019-11-07T23:07Z] 58	1.70256
[2019-11-07T23:07Z] 59	1.70256
[2019-11-07T23:07Z] 60	1.70256
[2019-11-07T23:07Z] 61	1.70256
[2019-11-07T23:07Z] 62	1.70256
[2019-11-07T23:07Z] 63	1.70256
[2019-11-07T23:07Z] 64	1.70256
[2019-11-07T23:07Z] 65	1.70256
[2019-11-07T23:07Z] 66	1.70256
[2019-11-07T23:07Z] 67	1.70256
[2019-11-07T23:07Z] 68	1.70256
[2019-11-07T23:07Z] 69	1.70256
[2019-11-07T23:07Z] 70	1.70256
[2019-11-07T23:07Z] 71	1.70256
[2019-11-07T23:07Z] 72	1.70256
[2019-11-07T23:07Z] 73	1.70256
[2019-11-07T23:07Z] 74	1.70256
[2019-11-07T23:07Z] 75	1.70256
[2019-11-07T23:07Z] 76	1.70256
[2019-11-07T23:07Z] 77	1.70256
[2019-11-07T23:07Z] 78	1.70256
[2019-11-07T23:07Z] 79	1.70256
[2019-11-07T23:07Z] 80	1.70256
[2019-11-07T23:07Z] 81	1.70256
[2019-11-07T23:07Z] 82	1.70256
[2019-11-07T23:07Z] 83	1.70256
[2019-11-07T23:07Z] 84	1.70256
[2019-11-07T23:07Z] 85	1.70256
[2019-11-07T23:07Z] 86	1.70256
[2019-11-07T23:07Z] 87	1.70256
[2019-11-07T23:07Z] 88	1.70256
[2019-11-07T23:07Z] 89	1.70256
[2019-11-07T23:07Z] 90	1.70256
[2019-11-07T23:07Z] 91	1.70256
[2019-11-07T23:07Z] 92	1.70256
[2019-11-07T23:07Z] 93	1.70256
[2019-11-07T23:07Z] 94	1.70256
[2019-11-07T23:07Z] 95	1.70256
[2019-11-07T23:07Z] 96	1.70256
[2019-11-07T23:07Z] 97	1.70256
[2019-11-07T23:07Z] 98	1.70256
[2019-11-07T23:07Z] 99	1.70256
[2019-11-07T23:07Z] 100	1.70256
[2019-11-07T23:07Z] [V] blocks generated in time 06:32:63845199
[2019-11-07T23:07Z] [V] number of blocks to be merged is 147 using 55 blocks per input with block size 1048576
[2019-11-07T23:07Z] [V] 1362785 01:94512099
[2019-11-07T23:07Z] [V] 2743089 02:47664399
[2019-11-07T23:07Z] [V] 3431951 02:75644299
[2019-11-07T23:07Z] [V] 4788447 03:25168100
[2019-11-07T23:07Z] [V] 5462308 03:60586900
[2019-11-07T23:07Z] [V] 6839524 04:62205200
[2019-11-07T23:07Z] [V] 7528852 05:49640199
[2019-11-07T23:08Z] [V] 8906708 07:25545400
[2019-11-07T23:08Z] [V] 9575422 08:34869800
[2019-11-07T23:08Z] [V] 10935641 10:39029500
[2019-11-07T23:08Z] [V] 11625638 11:47196399
[2019-11-07T23:08Z] [V] 12973955 13:46251099
[2019-11-07T23:08Z] [V] 13657411 14:38289800
[2019-11-07T23:08Z] [V] 15033548 16:30061200
[2019-11-07T23:08Z] [V] 16412733 18:14525000
[2019-11-07T23:08Z] [V] 17103464 19:12462599
[2019-11-07T23:08Z] [V] 18482493 20:97426799
[2019-11-07T23:08Z] [V] 19171736 21:87445800
[2019-11-07T23:08Z] [V] 20551967 23:72756700
[2019-11-07T23:08Z] [V] 21240056 24:67893199
[2019-11-07T23:08Z] [V] 22616002 26:53625100
[2019-11-07T23:08Z] [V] 23305324 27:37900199
[2019-11-07T23:08Z] [V] 24675190 29:21480599
[2019-11-07T23:08Z] [V] 25362213 30:13304700
[2019-11-07T23:08Z] [V] 26739260 31:99088599
[2019-11-07T23:08Z] [V] 27428470 32:85979999
[2019-11-07T23:08Z] [V] 28805052 34:70873100
[2019-11-07T23:08Z] [V] 29494223 35:60375899
[2019-11-07T23:08Z] [V] 30865367 37:49860100
[2019-11-07T23:08Z] [V] 31554351 38:39353700
[2019-11-07T23:08Z] [V] 32928990 40:22889599
[2019-11-07T23:08Z] [V] 33618666 41:15966800
[2019-11-07T23:08Z] [V] 34998062 43:03850899
[2019-11-07T23:08Z] [V] 35686339 44:00443500
[2019-11-07T23:08Z] [V] 37062827 45:83342100
[2019-11-07T23:08Z] [V] 37749727 46:76299399
[2019-11-07T23:08Z] [V] 39128918 48:52196500
[2019-11-07T23:08Z] [V] 40508965 50:31781000
[2019-11-07T23:08Z] [V] 41195924 51:22611500
[2019-11-07T23:08Z] [V] 42571379 53:00005300
[2019-11-07T23:08Z] [V] 43249297 53:90271200
[2019-11-07T23:08Z] [V] 44616749 55:62963500
[2019-11-07T23:08Z] [V] 45307866 56:51844299
[2019-11-07T23:08Z] [V] 46685190 58:26710099
[2019-11-07T23:08Z] [V] 47375243 59:13104299
[2019-11-07T23:08Z] [V] 48744815 01:00:83743599
[2019-11-07T23:08Z] [V] 49424571 01:01:81450900
[2019-11-07T23:08Z] [V] 50804386 01:03:47454900
[2019-11-07T23:08Z] [V] 51494615 01:04:40125399
[2019-11-07T23:09Z] [V] 52874972 01:06:08120499
[2019-11-07T23:09Z] [V] 53561526 01:06:92221399
[2019-11-07T23:09Z] [V] 54931134 01:08:74300800
[2019-11-07T23:09Z] [V] 55594366 01:09:71380399
[2019-11-07T23:09Z] [V] 56972469 01:11:56700999
[2019-11-07T23:09Z] [V] 58350385 01:13:41097299
[2019-11-07T23:09Z] [V] 59035254 01:14:28097099
[2019-11-07T23:09Z] [V] 60394391 01:15:98014100
[2019-11-07T23:09Z] [V] 61084943 01:16:86159100
[2019-11-07T23:09Z] [V] 62461538 01:18:66578599
[2019-11-07T23:09Z] [V] 63150369 01:19:57819600
[2019-11-07T23:09Z] [V] 64526061 01:21:32651400
[2019-11-07T23:09Z] [V] 65216060 01:22:20028700
[2019-11-07T23:09Z] [V] 66583277 01:23:85222600
[2019-11-07T23:09Z] [V] 67272672 01:24:74219499
[2019-11-07T23:09Z] [V] 68651444 01:26:56057199
[2019-11-07T23:09Z] [V] 69336499 01:27:46048199
[2019-11-07T23:09Z] [V] 70712779 01:29:16239400
[2019-11-07T23:09Z] [V] 71402002 01:30:06118499
[2019-11-07T23:09Z] [V] 72779587 01:31:99310699
[2019-11-07T23:09Z] [V] 73468318 01:32:91563800
[2019-11-07T23:09Z] [V] 74847048 01:34:76695999
[2019-11-07T23:09Z] [V] 75536934 01:35:71563999
[2019-11-07T23:09Z] [V] 76910600 01:37:64258700
[2019-11-07T23:09Z] [V] 77599235 01:38:41969799
[2019-11-07T23:09Z] [V] 78979072 01:40:27784499
[2019-11-07T23:09Z] [V] 80338223 01:42:00172799
[2019-11-07T23:09Z] [V] 81013140 01:42:83006299
[2019-11-07T23:09Z] [V] 82390541 01:44:58025399
[2019-11-07T23:09Z] [V] 83074245 01:45:45444999
[2019-11-07T23:09Z] [V] 84450122 01:47:27718600
[2019-11-07T23:09Z] [V] 85139204 01:48:21313700
[2019-11-07T23:09Z] [V] 86478365 01:50:26092099
[2019-11-07T23:09Z] [V] 87168439 01:51:24278200
[2019-11-07T23:09Z] [V] 88543480 01:53:11073000
[2019-11-07T23:09Z] [V] 89225327 01:54:05353700
[2019-11-07T23:09Z] [V] 90589415 01:55:82497800
[2019-11-07T23:09Z] [V] 91277169 01:56:83063599
[2019-11-07T23:09Z] [V] 92651874 01:58:75442300
[2019-11-07T23:09Z] [V] 93341803 01:59:66618800
[2019-11-07T23:09Z] [V] 94720288 02:01:65284499
[2019-11-07T23:09Z] [V] 96093272 02:03:60952199
[2019-11-07T23:09Z] [V] 96782539 02:04:55993800
[2019-11-07T23:10Z] [V] 98160168 02:06:41207099
[2019-11-07T23:10Z] [V] 98846199 02:07:31565500
[2019-11-07T23:10Z] [V] 100216879 02:09:19715099
[2019-11-07T23:10Z] [V] 100906814 02:10:12433300
[2019-11-07T23:10Z] [V] 102271030 02:11:98873199
[2019-11-07T23:10Z] [V] 102953439 02:12:84037900
[2019-11-07T23:10Z] [V] 104335590 02:14:67280400
[2019-11-07T23:10Z] [V] 105026384 02:15:52043199
[2019-11-07T23:10Z] [V] 106404122 02:17:24445800
[2019-11-07T23:10Z] [V] 107092884 02:18:21771100
[2019-11-07T23:10Z] [V] 108472560 02:20:21522200
[2019-11-07T23:10Z] [V] 109161605 02:21:02787100
[2019-11-07T23:10Z] [V] 110114725 02:22:77587500
[2019-11-07T23:10Z] [V] 110114725
[2019-11-07T23:10Z] [D]	md5	7fc67576b92b996d0b78a34a9e3d4ff7
[2019-11-07T23:10Z] [V] checksum ok
[2019-11-07T23:10Z] [V] blocks merged in time 02:30:34904199
[2019-11-07T23:10Z] [V] run time 09:02:98836700 (542.988 s)	MemUsage(size=6750.27,rss=4712.36,peak=13317.5)
[2019-11-07T23:10Z] Check for valid merged BAM
[2019-11-07T23:10Z] Check for valid merged BAM after transfer
[2019-11-07T23:10Z] Timing: callable regions
[2019-11-07T23:10Z] multiprocessing: prep_samples
[2019-11-07T23:10Z] multiprocessing: postprocess_alignment
[2019-11-07T23:10Z] Calculating coverage: CTRL-F-021218 variant_regions
[2019-11-07T23:13Z] CTRL-F-021218: Assigned coverage as 'regional' with 3.5% genome coverage and 0.0% offtarget coverage
[2019-11-07T23:13Z] samtools stats : CTRL-F-021218
[2019-11-07T23:16Z] samtools index stats : CTRL-F-021218
[2019-11-07T23:16Z] multiprocessing: combine_sample_regions
[2019-11-07T23:16Z] Identified 266 parallel analysis blocks
Block sizes:
min: 266
5%: 29466.5
25%: 4416269.75
median: 15509545.5
75%: 15510529.25
95%: 15540472.75
99%: 19363254.350000024
max: 43306310
Between block sizes:
min: 253
5%: 284.65
25%: 527.5
median: 952.0
75%: 1904.25
95%: 4045.5499999999993
99%: 9962.589999999802
max: 37868
[2019-11-07T23:16Z] multiprocessing: calculate_sv_bins
[2019-11-07T23:16Z] Prepare cleaned BED file : CTRL-F-021218
[2019-11-07T23:17Z] bgzip CTRL-F-021218-sort-callable_sample.bed
[2019-11-07T23:17Z] tabix index CTRL-F-021218-sort-callable_sample.bed.gz
[2019-11-07T23:17Z] CNVkit targets from background
[2019-11-07T23:17Z] Wrote /isilon/R_and_D/user_folders/hjnam/Projects/CNV/toy_testing/CNVkit/work/bcbiotx/tmp2mj4bqhj/CTRL-F-021218.target.bed with 955974 regions
[2019-11-07T23:17Z] Wrote /isilon/R_and_D/user_folders/hjnam/Projects/CNV/toy_testing/CNVkit/work/bcbiotx/tmp2mj4bqhj/CTRL-F-021218.antitarget.bed with 0 regions
[2019-11-07T23:17Z] multiprocessing: calculate_sv_coverage
[2019-11-07T23:17Z] Calculating coverage: CTRL-F-021218 target
[2019-11-07T23:18Z] Calculating coverage: CTRL-F-021218 antitarget
[2019-11-07T23:18Z] Annotate BED file with gene info
[2019-11-07T23:18Z] > gsort version 0.1.2
[2019-11-07T23:18Z] > gsort version 0.1.2
multiprocessing.pool.RemoteTraceback:
"""
Traceback (most recent call last):
File "/isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/anaconda/lib/python3.6/multiprocessing/pool.py", line 119, in worker
result = (True, func(*args, **kwds))
File "/home/sequencer/.local/lib/python3.6/site-packages/joblib/_parallel_backends.py", line 567, in call
return self.func(*args, **kwargs)
File "/home/sequencer/.local/lib/python3.6/site-packages/joblib/parallel.py", line 225, in call
for func, args, kwargs in self.items]
File "/home/sequencer/.local/lib/python3.6/site-packages/joblib/parallel.py", line 225, in
for func, args, kwargs in self.items]
File "/isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/anaconda/lib/python3.6/site-packages/bcbio/utils.py", line 55, in wrapper
return f(*args, **kwargs)
File "/isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/anaconda/lib/python3.6/site-packages/bcbio/distributed/multitasks.py", line 343, in calculate_sv_coverage
return svregions.calculate_sv_coverage(*args)
File "/isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/anaconda/lib/python3.6/site-packages/bcbio/structural/regions.py", line 181, in calculate_sv_coverage
out_target_file, out_anti_file = calcfns[cnvkit.bin_approach(data)](data, work_dir)
File "/isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/anaconda/lib/python3.6/site-packages/bcbio/structural/regions.py", line 227, in _calculate_sv_coverage_cnvkit
out_target_file = _add_log2_depth(target_cov_genes, out_target_file, data)
File "/isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/anaconda/lib/python3.6/site-packages/bcbio/structural/regions.py", line 250, in _add_log2_depth
depth = float(depth)
ValueError: could not convert string to float: '0.00,0.13,0.35,0.43,0.46,0.47,0.55,0.76,0.79,0.88,0.89,1.00,1.01,1.06,1.33,1.56,1.70,1.75,1.77,1.95,1.96,10.15,10.57,10.97,109.72,11.96,110.06,110.36,110.73,111.96,112.85,115.35,115.89,117.07,117.84,118.85,12.73,121.29,121.47,123.86,124.68,125.39,126.94,127.64,128.78,13.42,13.83,130.26,130.44,130.61,134.72,134.76,135.09,137.46,137.86,139.47,142.32,143.05,143.26,143.97,144.41,145.85,147.86,147.92,148.12,148.32,148.38,149.38,149.53,149.74,149.96,15.19,15.72,150.00,150.35,151.67,151.99,153.47,153.70,154.61,156.84,16.22,164.54,165.05,170.79,170.89,171.22,175.47,176.19,176.85,182.69,183.40,186.43,189.00,189.58,190.23,192.57,2.00,2.07,2.21,2.26,2.35,2.43,2.47,2.51,2.53,2.60,2.61,2.70,2.74,2.80,2.82,2.83,2.88,20.54,206.69,207.34,207.42,207.82,207.98,209.31,21.96,210.01,211.37,211.60,212.50,212.64,212.67,215.25,22.01,22.96,223.33,227.80,266.15,266.63,29.65,3.00,3.05,3.08,3.09,3.15,3.54,3.60,3.68,3.82,3.85,3.86,3.87,338.96,38.30,38.45,4.08,4.18,4.29,4.33,4.52,4.75,4.83,40.09,40.45,41.69,5.08,5.23,5.46,5.68,5.71,5.95,51.85,52.44,55.92,577.40,59.61,59.78,6.08,6.18,6.29,6.87,60.42,60.96,68.38,69.64,7.25,7.75,7.82,7.86,71.75,73.44,74.86,76.05,76.77,8.34,8.88,8.96,87.73,87.89,89.31,89.41,9.00,90.21,90.85,92.32,92.43,93.19,95.34,96.29,97.02,97.34,99.01'
"""
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File "/isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/anaconda/bin/bcbio_nextgen.py", line 245, in
main(**kwargs)
File "/isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/anaconda/bin/bcbio_nextgen.py", line 46, in main
run_main(**kwargs)
File "/isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/anaconda/lib/python3.6/site-packages/bcbio/pipeline/main.py", line 50, in run_main
fc_dir, run_info_yaml)
File "/isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/anaconda/lib/python3.6/site-packages/bcbio/pipeline/main.py", line 91, in _run_toplevel
for xs in pipeline(config, run_info_yaml, parallel, dirs, samples):
File "/isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/anaconda/lib/python3.6/site-packages/bcbio/pipeline/main.py", line 141, in variant2pipeline
samples = run_parallel("calculate_sv_coverage", samples)
File "/isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/anaconda/lib/python3.6/site-packages/bcbio/distributed/multi.py", line 28, in run_parallel
return run_multicore(fn, items, config, parallel=parallel)
File "/isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/anaconda/lib/python3.6/site-packages/bcbio/distributed/multi.py", line 86, in run_multicore
for data in joblib.Parallel(parallel["num_jobs"], batch_size=1, backend="multiprocessing")(joblib.delayed(fn)(*x) for x in items):
File "/home/sequencer/.local/lib/python3.6/site-packages/joblib/parallel.py", line 934, in call
self.retrieve()
File "/home/sequencer/.local/lib/python3.6/site-packages/joblib/parallel.py", line 833, in retrieve
self._output.extend(job.get(timeout=self.timeout))
File "/isilon/R_and_D/user_folders/hjnam/Programs/bcbio_local/stable/anaconda/lib/python3.6/multiprocessing/pool.py", line 670, in get
raise self._value
ValueError: could not convert string to float: '0.00,0.13,0.35,0.43,0.46,0.47,0.55,0.76,0.79,0.88,0.89,1.00,1.01,1.06,1.33,1.56,1.70,1.75,1.77,1.95,1.96,10.15,10.57,10.97,109.72,11.96,110.06,110.36,110.73,111.96,112.85,115.35,115.89,117.07,117.84,118.85,12.73,121.29,121.47,123.86,124.68,125.39,126.94,127.64,128.78,13.42,13.83,130.26,130.44,130.61,134.72,134.76,135.09,137.46,137.86,139.47,142.32,143.05,143.26,143.97,144.41,145.85,147.86,147.92,148.12,148.32,148.38,149.38,149.53,149.74,149.96,15.19,15.72,150.00,150.35,151.67,151.99,153.47,153.70,154.61,156.84,16.22,164.54,165.05,170.79,170.89,171.22,175.47,176.19,176.85,182.69,183.40,186.43,189.00,189.58,190.23,192.57,2.00,2.07,2.21,2.26,2.35,2.43,2.47,2.51,2.53,2.60,2.61,2.70,2.74,2.80,2.82,2.83,2.88,20.54,206.69,207.34,207.42,207.82,207.98,209.31,21.96,210.01,211.37,211.60,212.50,212.64,212.67,215.25,22.01,22.96,223.33,227.80,266.15,266.63,29.65,3.00,3.05,3.08,3.09,3.15,3.54,3.60,3.68,3.82,3.85,3.86,3.87,338.96,38.30,38.45,4.08,4.18,4.29,4.33,4.52,4.75,4.83,40.09,40.45,41.69,5.08,5.23,5.46,5.68,5.71,5.95,51.85,52.44,55.92,577.40,59.61,59.78,6.08,6.18,6.29,6.87,60.42,60.96,68.38,69.64,7.25,7.75,7.82,7.86,71.75,73.44,74.86,76.05,76.77,8.34,8.88,8.96,87.73,87.89,89.31,89.41,9.00,90.21,90.85,92.32,92.43,93.19,95.34,96.29,97.02,97.34,99.01'
`

Hyunjun;
Thanks for following up. This error message is semi-useful, but doesn't contain the full input line from the file, only the problematic column. I'm trying to understand the disconnect between the parsing code and input background cnn (../input/pon_build-cnvkit-background.cnn). Would you be able to share some of that file? At a minimum, the header and line that fails (with that long string of values in the error message) would be very helpful. Thanks much.

Hi Brad,
I've attached the par to of cnn file that was used here. It has header and only the line that fails.
Thanks!
part.txt

Hyunjun;
Thank you for following up and passing along the input background file. I believe the issue is that the CNN has overlapping intervals. For example:
3       50169418        51177258        RP11-493K19.3   0.0148623       2.43    0.480559        0       0.0371145
3       50235808        50235933        .       -0.419841       2.7     0.552           0.424484
3       50300632        50300697        U73166.2        0.00573254      4.75    0.569231                0.630071
3       50345382        50345424        HYAL1   -1.75587        2.26    0.380952                0.775819
3       50629794        50629906        .       0.0396529       5.71    0.508929                0.102677
3       50738680        50738719        DOCK3   -1.13393        0.46    0.512821                1.0255
3       50765063        50765114        DOCK3   0.618294        5.08    0.588235                0.612088
3       50866091        50866226        DOCK3   0.215679        3.87    0.511111                0.335297
3       50868692        50868776        DOCK3   0.431088        5.23    0.428571                0.70587
3       50936555        50936692        DOCK3   -3.38101        1.77    0.350365                1.75425

After depth calculations from these inputs, the resulting files get collapsed by additional of gene names with a bedtools merge -d 0 and that causes these overlapping intervals to have multiple depth values in a column, leading to the result you're seeing.
In general we expect the background to have regions segmented so they don't overlap:
3       50169418        51177258        RP11-493K19.3   0.0148623       2.43    0.480559        0       0.0371145
3       51177258        52185098        DOCK3   0.0682643       2.47    0.464454        0       0.0629949

Is it possible that your original run had a BED file or other input that led to these overlaps? I'm sorry, I haven't seen this before so trying to identify the underlying cause to avoid it when building your CNN file. Apologies this is so tricky to track down but I hope if you're able to make background files avoiding these overlaps it would avoid this issue and get things working cleanly. Hope this helps.