Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d2/e8ecc6f1cb824d8e95bfc07f41e40a/.command.sh
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta.fai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a7/838f395c3fed90c4e380bfc05a5b19/1029_0W2-N1-BDNA-1_B23KGCJLT4_1/1029_0W2-N1-BDNA-1_B23KGCJLT4_1_R1.fastq.gz
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/BWAIndex
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d2/e8ecc6f1cb824d8e95bfc07f41e40a/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a7/838f395c3fed90c4e380bfc05a5b19/1029_0W2-N1-BDNA-1_B23KGCJLT4_1/1029_0W2-N1-BDNA-1_B23KGCJLT4_1_R2.fastq.gz
==> STAGING COMPLETE (7 inputs)

This software is licensed to bgold@natera.com by Sentieon Inc.
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/util sort -r Homo_sapiens_assembly38.fasta -t 31 -o 1029_0W2-N1-BDNA-1_B23KGCJLT4_1.bam --sam2bam -
This software is licensed to bgold@natera.com by Sentieon Inc.
version: sentieon-genomics-202308.03
[M::bwa_idx_load_from_disk] read 3171 ALT contigs
[M::main_mem] bwa index loaded in 2069.439 CPU sec, 77.271 real sec
[M::process] read 679636 sequences (100000110 bp) in 1.263 CPU sec, 1.265 real sec...
[M::process] read 678522 sequences (100000137 bp) in 1.599 CPU sec, 1.701 real sec...
[M::process] read 677348 sequences (100000281 bp) in 1.569 CPU sec, 1.580 real sec...
[M::process] read 679048 sequences (100000055 bp) in 1.535 CPU sec, 1.539 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 280288, 2, 1)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (235, 370, 513)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1069)
[M::mem_pestat] mean and std.dev: (385.36, 184.30)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1347)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_process_seqs] Processed 678522 reads in 94.972 CPU sec, 3.036 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 280369, 0, 4)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (228, 359, 500)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1044)
[M::mem_pestat] mean and std.dev: (375.42, 181.40)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1316)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (8, 279560, 6, 1)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (243, 379, 525)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1089)
[M::mem_pestat] mean and std.dev: (394.04, 186.35)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1371)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 678152 sequences (100000092 bp) in 1.555 CPU sec, 1.592 real sec...
[M::mem_process_seqs] Processed 679636 reads in 285.723 CPU sec, 9.198 real sec
sorting block 0, #reads = 1077819 mem = 536878226 peak = 589737984
[M::mem_process_seqs] Processed 677348 reads in 129.669 CPU sec, 4.188 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 279826, 2, 2)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (229, 362, 507)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1063)
[M::mem_pestat] mean and std.dev: (379.62, 183.88)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1341)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 677594 sequences (100000109 bp) in 2.317 CPU sec, 2.528 real sec...
[M::process] read 677674 sequences (100000283 bp) in 1.518 CPU sec, 1.527 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (3, 279286, 2, 3)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (235, 368, 514)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1072)
[M::mem_pestat] mean and std.dev: (385.54, 184.92)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1351)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_process_seqs] Processed 679048 reads in 176.252 CPU sec, 5.691 real sec
sorting block 1, #reads = 1077420 mem = 536879327 peak = 860270592
[M::mem_process_seqs] Processed 678152 reads in 113.300 CPU sec, 3.688 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 278938, 4, 4)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (237, 370, 516)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1074)
[M::mem_pestat] mean and std.dev: (387.14, 184.71)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1353)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 679586 sequences (100000226 bp) in 1.995 CPU sec, 2.236 real sec...
sorting block 2, #reads = 1078671 mem = 536878457 peak = 894509056
[M::process] read 678618 sequences (100000036 bp) in 1.412 CPU sec, 1.457 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 279917, 1, 1)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (237, 372, 519)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1083)
[M::mem_pestat] mean and std.dev: (389.20, 186.96)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1365)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_process_seqs] Processed 677594 reads in 172.961 CPU sec, 5.613 real sec
[M::mem_process_seqs] Processed 677674 reads in 111.301 CPU sec, 3.638 real sec
sorting block 3, #reads = 1076607 mem = 536879693 peak = 894509056
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 279972, 5, 2)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (229, 364, 505)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1057)
[M::mem_pestat] mean and std.dev: (378.29, 181.79)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1333)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 677588 sequences (100000143 bp) in 2.368 CPU sec, 2.865 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 280046, 2, 1)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (237, 372, 513)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1065)
[M::mem_pestat] mean and std.dev: (385.58, 182.96)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1341)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 679420 sequences (100000057 bp) in 1.568 CPU sec, 1.693 real sec...
[M::mem_process_seqs] Processed 679586 reads in 170.458 CPU sec, 5.545 real sec
[M::mem_process_seqs] Processed 678618 reads in 112.248 CPU sec, 3.645 real sec
sorting block 4, #reads = 1078809 mem = 536877548 peak = 894509056
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 279054, 1, 4)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (243, 380, 523)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1083)
[M::mem_pestat] mean and std.dev: (393.24, 185.04)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1363)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 677464 sequences (100000110 bp) in 2.490 CPU sec, 3.021 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 280271, 1, 2)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (229, 364, 509)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1069)
[M::mem_pestat] mean and std.dev: (380.15, 183.72)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1349)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 677458 sequences (100000248 bp) in 1.656 CPU sec, 1.690 real sec...
[M::mem_process_seqs] Processed 677588 reads in 173.413 CPU sec, 5.647 real sec
[M::mem_process_seqs] Processed 679420 reads in 113.949 CPU sec, 3.687 real sec
sorting block 5, #reads = 1077163 mem = 536880776 peak = 894509056
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 279412, 1, 0)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (241, 377, 521)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1081)
[M::mem_pestat] mean and std.dev: (390.89, 184.03)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1361)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 678652 sequences (100000083 bp) in 2.532 CPU sec, 2.775 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (3, 280078, 2, 2)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (239, 374, 518)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1076)
[M::mem_pestat] mean and std.dev: (389.71, 185.06)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1355)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 679896 sequences (100000144 bp) in 1.781 CPU sec, 1.832 real sec...
[M::mem_process_seqs] Processed 677464 reads in 172.917 CPU sec, 5.526 real sec
sorting block 6, #reads = 1077690 mem = 536883169 peak = 894509056
[M::mem_process_seqs] Processed 677458 reads in 112.952 CPU sec, 3.594 real sec
sorting block 7, #reads = 1077502 mem = 536881184 peak = 904503296
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 280057, 0, 1)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (232, 367, 511)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1069)
[M::mem_pestat] mean and std.dev: (382.83, 184.60)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1348)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 678406 sequences (100000180 bp) in 2.045 CPU sec, 2.191 real sec...
[M::process] read 677704 sequences (100000051 bp) in 1.701 CPU sec, 1.754 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 280067, 2, 1)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (227, 360, 498)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1040)
[M::mem_pestat] mean and std.dev: (373.48, 177.88)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1311)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_process_seqs] Processed 678652 reads in 174.033 CPU sec, 5.582 real sec
[M::mem_process_seqs] Processed 679896 reads in 115.523 CPU sec, 3.685 real sec
sorting block 8, #reads = 1077127 mem = 536880740 peak = 904503296
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 279710, 3, 1)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (239, 375, 516)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1070)
[M::mem_pestat] mean and std.dev: (387.17, 181.71)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1347)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 677754 sequences (100000088 bp) in 2.626 CPU sec, 2.924 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 278960, 3, 0)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (240, 377, 518)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1074)
[M::mem_pestat] mean and std.dev: (388.92, 182.03)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1352)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 677062 sequences (100000188 bp) in 1.890 CPU sec, 1.952 real sec...
[M::mem_process_seqs] Processed 678406 reads in 177.335 CPU sec, 5.688 real sec
[M::mem_process_seqs] Processed 677704 reads in 115.619 CPU sec, 3.688 real sec
sorting block 9, #reads = 1077058 mem = 536880175 peak = 904503296
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 279245, 0, 1)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (241, 378, 520)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1078)
[M::mem_pestat] mean and std.dev: (389.55, 182.00)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1357)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 677284 sequences (100000030 bp) in 2.232 CPU sec, 2.540 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 278410, 2, 2)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (244, 379, 521)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1075)
[M::mem_pestat] mean and std.dev: (392.10, 182.39)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1352)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 679412 sequences (100000176 bp) in 1.787 CPU sec, 1.859 real sec...
[M::mem_process_seqs] Processed 677754 reads in 177.258 CPU sec, 5.705 real sec
[M::mem_process_seqs] Processed 677062 reads in 116.467 CPU sec, 3.726 real sec
sorting block 10, #reads = 1076295 mem = 536882374 peak = 904503296
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 279553, 2, 0)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (241, 377, 523)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1087)
[M::mem_pestat] mean and std.dev: (392.59, 186.54)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1369)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
sorting block 11, #reads = 1075696 mem = 536877721 peak = 904503296
[M::process] read 679714 sequences (100000091 bp) in 2.982 CPU sec, 3.251 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 279639, 3, 0)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (228, 362, 505)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1059)
[M::mem_pestat] mean and std.dev: (377.72, 182.64)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1336)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_process_seqs] Processed 677284 reads in 175.924 CPU sec, 5.676 real sec
[M::process] read 677808 sequences (100000128 bp) in 1.911 CPU sec, 1.952 real sec...
[M::mem_process_seqs] Processed 679412 reads in 115.645 CPU sec, 3.738 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (3, 279693, 0, 0)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (229, 361, 501)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1045)
[M::mem_pestat] mean and std.dev: (374.89, 178.32)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1317)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
sorting block 12, #reads = 1077182 mem = 536876324 peak = 904503296
[M::process] read 678540 sequences (100000117 bp) in 2.449 CPU sec, 2.763 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (3, 279169, 3, 0)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (241, 377, 520)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1078)
[M::mem_pestat] mean and std.dev: (389.91, 182.21)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1357)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 677810 sequences (100000183 bp) in 1.840 CPU sec, 1.858 real sec...
[M::mem_process_seqs] Processed 679714 reads in 177.349 CPU sec, 5.732 real sec
[M::mem_process_seqs] Processed 677808 reads in 117.694 CPU sec, 3.791 real sec
sorting block 13, #reads = 1077066 mem = 536876339 peak = 904503296
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 279243, 1, 3)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (235, 369, 510)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1060)
[M::mem_pestat] mean and std.dev: (382.15, 179.88)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1335)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 677266 sequences (100000092 bp) in 2.662 CPU sec, 3.059 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 279599, 0, 3)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (239, 373, 513)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1061)
[M::mem_pestat] mean and std.dev: (385.51, 179.57)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1335)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_process_seqs] Processed 678540 reads in 178.488 CPU sec, 5.766 real sec
[M::process] read 677332 sequences (100000265 bp) in 2.152 CPU sec, 2.275 real sec...
[M::mem_process_seqs] Processed 677810 reads in 117.614 CPU sec, 3.770 real sec
sorting block 14, #reads = 1076421 mem = 536877838 peak = 904503296
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 278991, 0, 6)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (241, 377, 520)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1078)
[M::mem_pestat] mean and std.dev: (390.08, 182.32)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1357)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 680862 sequences (100000020 bp) in 2.402 CPU sec, 2.668 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (5, 279739, 3, 2)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (239, 374, 521)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1085)
[M::mem_pestat] mean and std.dev: (390.15, 185.15)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1367)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_process_seqs] Processed 677266 reads in 178.947 CPU sec, 5.773 real sec
[M::process] read 679016 sequences (100000116 bp) in 1.819 CPU sec, 1.845 real sec...
sorting block 15, #reads = 1076910 mem = 536881166 peak = 904503296
[M::mem_process_seqs] Processed 677332 reads in 116.044 CPU sec, 3.693 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 281514, 2, 4)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (221, 354, 502)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1064)
[M::mem_pestat] mean and std.dev: (372.53, 183.48)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1345)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
sorting block 16, #reads = 1076620 mem = 536878592 peak = 904503296
[M::process] read 678788 sequences (100000264 bp) in 2.865 CPU sec, 3.154 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 280019, 3, 2)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (232, 369, 516)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1084)
[M::mem_pestat] mean and std.dev: (384.15, 184.42)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1368)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 680096 sequences (100000153 bp) in 1.900 CPU sec, 1.913 real sec...
[M::mem_process_seqs] Processed 680862 reads in 186.345 CPU sec, 5.973 real sec
[M::mem_process_seqs] Processed 679016 reads in 122.933 CPU sec, 3.912 real sec
sorting block 17, #reads = 1077133 mem = 536888325 peak = 904503296
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 280005, 3, 5)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (234, 368, 511)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1065)
[M::mem_pestat] mean and std.dev: (382.73, 181.89)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1342)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 678944 sequences (100000138 bp) in 2.279 CPU sec, 2.576 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 281036, 1, 1)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (221, 346, 483)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1007)
[M::mem_pestat] mean and std.dev: (363.52, 175.02)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1269)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 677990 sequences (100000067 bp) in 1.995 CPU sec, 1.996 real sec...
[M::mem_process_seqs] Processed 678788 reads in 184.230 CPU sec, 5.918 real sec
[M::mem_process_seqs] Processed 680096 reads in 123.982 CPU sec, 3.945 real sec
sorting block 18, #reads = 1076078 mem = 536879593 peak = 904503296
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 279843, 2, 0)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (229, 357, 492)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1018)
[M::mem_pestat] mean and std.dev: (370.97, 175.16)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1281)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 679788 sequences (100000149 bp) in 2.816 CPU sec, 3.119 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 280179, 2, 4)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (233, 359, 495)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1019)
[M::mem_pestat] mean and std.dev: (373.95, 174.88)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1281)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_process_seqs] Processed 678944 reads in 188.713 CPU sec, 6.067 real sec
[M::process] read 680158 sequences (100000211 bp) in 1.866 CPU sec, 1.902 real sec...
[M::mem_process_seqs] Processed 677990 reads in 127.799 CPU sec, 4.093 real sec
sorting block 19, #reads = 1076369 mem = 536879686 peak = 904503296
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 280928, 1, 3)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (224, 355, 499)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1049)
[M::mem_pestat] mean and std.dev: (372.66, 180.63)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1324)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 678738 sequences (100000212 bp) in 2.623 CPU sec, 3.020 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 280997, 1, 4)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (224, 356, 494)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1034)
[M::mem_pestat] mean and std.dev: (370.24, 177.10)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1304)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_process_seqs] Processed 679788 reads in 186.833 CPU sec, 6.006 real sec
[M::process] read 680306 sequences (100000065 bp) in 1.897 CPU sec, 1.913 real sec...
sorting block 20, #reads = 1073701 mem = 536878823 peak = 904503296
[M::mem_process_seqs] Processed 680158 reads in 124.895 CPU sec, 3.971 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 280472, 4, 2)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (234, 367, 507)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1053)
[M::mem_pestat] mean and std.dev: (380.16, 179.36)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1326)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
sorting block 21, #reads = 1075762 mem = 536879623 peak = 960147456
[M::process] read 678464 sequences (100000141 bp) in 2.975 CPU sec, 3.289 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 280613, 3, 3)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (224, 352, 486)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1010)
[M::mem_pestat] mean and std.dev: (366.03, 173.74)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1272)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_process_seqs] Processed 678738 reads in 187.450 CPU sec, 6.064 real sec
[M::process] read 677828 sequences (100000102 bp) in 2.038 CPU sec, 2.126 real sec...
[M::mem_process_seqs] Processed 680306 reads in 126.614 CPU sec, 4.069 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 279941, 2, 1)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (233, 364, 500)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1034)
[M::mem_pestat] mean and std.dev: (376.30, 176.05)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1301)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
sorting block 22, #reads = 1073819 mem = 536880497 peak = 960147456
[M::process] read 677938 sequences (100000000 bp) in 2.963 CPU sec, 3.392 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 279846, 0, 4)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (236, 368, 504)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1040)
[M::mem_pestat] mean and std.dev: (380.18, 177.25)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1308)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_process_seqs] Processed 678464 reads in 183.973 CPU sec, 5.933 real sec
[M::mem_process_seqs] Processed 677828 reads in 121.196 CPU sec, 3.859 real sec
[M::process] read 681206 sequences (100000058 bp) in 2.179 CPU sec, 2.279 real sec...
sorting block 23, #reads = 1075659 mem = 536876960 peak = 960147456
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 279824, 1, 3)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (234, 366, 508)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1056)
[M::mem_pestat] mean and std.dev: (381.31, 180.59)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1330)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 679240 sequences (100000288 bp) in 2.887 CPU sec, 3.208 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 280433, 3, 2)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (219, 349, 489)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1029)
[M::mem_pestat] mean and std.dev: (365.29, 177.48)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1299)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_process_seqs] Processed 677938 reads in 194.595 CPU sec, 6.250 real sec
[M::process] read 678844 sequences (100000282 bp) in 1.958 CPU sec, 1.966 real sec...
[M::mem_process_seqs] Processed 681206 reads in 126.391 CPU sec, 4.024 real sec
sorting block 24, #reads = 1074136 mem = 536878229 peak = 960147456
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (3, 280019, 2, 2)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (230, 362, 500)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1040)
[M::mem_pestat] mean and std.dev: (375.03, 177.00)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1310)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 679086 sequences (100000300 bp) in 2.405 CPU sec, 2.669 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 279841, 2, 1)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (232, 362, 498)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1030)
[M::mem_pestat] mean and std.dev: (374.33, 174.35)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1296)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 678626 sequences (100000039 bp) in 1.988 CPU sec, 2.014 real sec...
[M::mem_process_seqs] Processed 679240 reads in 191.307 CPU sec, 6.135 real sec
sorting block 25, #reads = 1073858 mem = 536878932 peak = 960147456
[M::mem_process_seqs] Processed 678844 reads in 126.213 CPU sec, 4.017 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 280108, 3, 5)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (228, 358, 491)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1017)
[M::mem_pestat] mean and std.dev: (369.92, 172.71)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1280)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
sorting block 26, #reads = 1074310 mem = 536880031 peak = 960147456
[M::process] read 678590 sequences (100000195 bp) in 2.974 CPU sec, 3.273 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 280113, 2, 2)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (232, 361, 495)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1021)
[M::mem_pestat] mean and std.dev: (373.10, 172.88)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1284)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_process_seqs] Processed 679086 reads in 186.566 CPU sec, 6.002 real sec
[M::process] read 681480 sequences (100000179 bp) in 2.060 CPU sec, 2.083 real sec...
[M::mem_process_seqs] Processed 678626 reads in 123.931 CPU sec, 3.949 real sec
sorting block 27, #reads = 1075933 mem = 536877524 peak = 960147456
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (3, 280722, 1, 3)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (233, 363, 499)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1031)
[M::mem_pestat] mean and std.dev: (375.57, 175.36)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1297)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 680418 sequences (100000038 bp) in 2.657 CPU sec, 3.040 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 281534, 3, 0)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (217, 347, 493)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1045)
[M::mem_pestat] mean and std.dev: (365.79, 179.92)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1321)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 678870 sequences (100000027 bp) in 1.363 CPU sec, 1.369 real sec...
[M::mem_process_seqs] Processed 678590 reads in 188.028 CPU sec, 6.062 real sec
[M::mem_process_seqs] Processed 681480 reads in 128.478 CPU sec, 4.095 real sec
sorting block 28, #reads = 1074442 mem = 536878227 peak = 960147456
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 280484, 2, 2)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (223, 356, 500)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1054)
[M::mem_pestat] mean and std.dev: (371.40, 178.54)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1331)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 680098 sequences (100000301 bp) in 2.263 CPU sec, 2.391 real sec...
[M::process] read 678698 sequences (100000037 bp) in 1.420 CPU sec, 1.413 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 279381, 1, 3)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (233, 369, 509)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1061)
[M::mem_pestat] mean and std.dev: (380.65, 178.62)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1337)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_process_seqs] Processed 680418 reads in 167.713 CPU sec, 5.334 real sec
sorting block 29, #reads = 1074277 mem = 536877906 peak = 960147456
[M::mem_process_seqs] Processed 678870 reads in 104.482 CPU sec, 3.335 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 280482, 0, 1)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (223, 348, 480)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 994)
[M::mem_pestat] mean and std.dev: (361.61, 169.36)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1251)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
sorting block 30, #reads = 1074208 mem = 536880070 peak = 960147456
[M::process] read 678262 sequences (100000023 bp) in 2.316 CPU sec, 2.461 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 279204, 0, 0)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (230, 359, 493)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1019)
[M::mem_pestat] mean and std.dev: (371.66, 173.38)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1282)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::process] read 504464 sequences (74418276 bp) in 1.420 CPU sec, 1.424 real sec...
[M::mem_process_seqs] Processed 680098 reads in 150.615 CPU sec, 4.790 real sec
[M::mem_process_seqs] Processed 678698 reads in 99.065 CPU sec, 3.138 real sec
sorting block 31, #reads = 1074746 mem = 536876620 peak = 960147456
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (4, 280040, 1, 0)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (233, 360, 492)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1010)
[M::mem_pestat] mean and std.dev: (372.49, 172.46)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1269)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 207938, 1, 0)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (236, 368, 508)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 1052)
[M::mem_pestat] mean and std.dev: (381.89, 179.41)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1324)
[M::mem_pestat] skip orientation RF as there are not enough pairs
[M::mem_pestat] skip orientation RR as there are not enough pairs
[M::mem_process_seqs] Processed 678262 reads in 138.832 CPU sec, 4.496 real sec
[M::mem_process_seqs] Processed 504464 reads in 82.967 CPU sec, 2.683 real sec
sorting block 32, #reads = 1076064 mem = 536879752 peak = 960147456
os version: Linux 6.12.83
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: 1f8bfbff fffab20b
  extended: f1bf27eb 1b407f7e
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 31
algo: bwa-mem
license: sentieon:klib=31
reads: 35799546
overall: 69445144576 mem 6977.341 user 313.559 sys 255.409 real
[main] Version: 0.7.17-r1188
[main] CMD: /opt/conda/share/sentieon-202308.03-3/libexec/bwa mem -K 100000000 -Y -R @RG\tID:B23KGCJLT4.1029_0W2-N1-BDNA-1_B23KGCJLT4_1.L004\tPU:L004\tSM:1029_0W2-N1-BDNA-1_B23KGCJLT4_1\tLB:1029_0W2-N1-BDNA-1_B23KGCJLT4_1\tDS:s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta\tPL:ILLUMINA -t 31 ./BWAIndex/Homo_sapiens_assembly38.fasta.64 1029_0W2-N1-BDNA-1_B23KGCJLT4_1_R1.fastq.gz 1029_0W2-N1-BDNA-1_B23KGCJLT4_1_R2.fastq.gz
[main] Real time: 255.443 sec; CPU: 7290.903 sec
sorting block 33, #reads = 427762 mem = 213886918 peak = 960147456
uniq header count 1
merging 34 blocks
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: 1f8bfbff fffab20b
  extended: f1bf27eb 1b407f7e
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 31 max 192
algo: util-sort
license: sentieon:util=1
output file size: 2058965032
output reads: 35940313
bam_mem_sort: 34 calls 21.712 user 0.411 sys 22.596 real
bam_write: 34 calls 20.235 user 1.499 sys 39.769 real
execute: 1 calls 7.668 user 0.344 sys 266.828 real
merge_files: 1 calls 7.643 user 0.323 sys 11.060 real
parse_chunk: 535 calls 24.409 user 6.070 sys 36.825 real
read_chunk: 1443 calls 9.537 user 7.565 sys 174.144 real
sort_block: 1 calls 8.115 user 7.015 sys 170.922 real
write_chunk: 906 calls 7.341 user 0.189 sys 10.467 real
overall: 2241912832 mem 438.290 user 22.015 sys 266.850 real
ls: cannot access '*.cram': No such file or directory