.command.log - Workdir - DAQ:SENTIEON_BWAMEM (1029_0I-N1-BDNA-1_B23KGCJLT4_1;L004;0001)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/56/e9a86d59fa4b8c2249c4520675edd8/.command.log
Size: 48.0 KB
Task: DAQ:SENTIEON_BWAMEM (1029_0I-N1-BDNA-1_B23KGCJLT4_1;L004;0001)
Attempt
Content

  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/56/e9a86d59fa4b8c2249c4520675edd8/.command.sh
  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/70/f8e7147109a01d493158c862fac379/1029_0I-N1-BDNA-1_B23KGCJLT4_1/1029_0I-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/56/e9a86d59fa4b8c2249c4520675edd8/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/70/f8e7147109a01d493158c862fac379/1029_0I-N1-BDNA-1_B23KGCJLT4_1/1029_0I-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_0I-N1-BDNA-1_B23KGCJLT4_1.bam --sam2bam -
This software is licensed to bgold@natera.com by Sentieon Inc.
No more license available for sentieon:klib
version: sentieon-genomics-202308.03
No more license available for sentieon:klib
[M::bwa_idx_load_from_disk] read 3171 ALT contigs
No more license available for sentieon:klib
No more license available for sentieon:klib
No more license available for sentieon:klib
No more license available for sentieon:klib
No more license available for sentieon:klib
No more license available for sentieon:klib
No more license available for sentieon:klib
No more license available for sentieon:klib
No more license available for sentieon:klib
No more license available for sentieon:klib
No more license available for sentieon:klib
No more license available for sentieon:klib
No more license available for sentieon:klib
No more license available for sentieon:klib
Received only 12 licenses out of 31 requested for sentieon:klib
[M::main_mem] bwa index loaded in 2134.725 CPU sec, 1015.133 real sec
[M::process] read 684706 sequences (100000132 bp) in 0.985 CPU sec, 0.986 real sec...
[M::process] read 683296 sequences (100000084 bp) in 1.299 CPU sec, 1.301 real sec...
[M::process] read 681690 sequences (100000290 bp) in 1.317 CPU sec, 1.321 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 283818, 6, 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: (202, 307, 434)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 898)
[M::mem_pestat] mean and std.dev: (328.90, 160.36)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1130)
[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 684142 sequences (100000102 bp) in 1.309 CPU sec, 1.315 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 282447, 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: (215, 326, 457)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 941)
[M::mem_pestat] mean and std.dev: (346.17, 165.84)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1183)
[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): (3, 282495, 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: (208, 317, 446)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 922)
[M::mem_pestat] mean and std.dev: (337.74, 163.57)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1160)
[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 684706 reads in 239.778 CPU sec, 7.661 real sec
[M::mem_process_seqs] Processed 681690 reads in 157.461 CPU sec, 5.091 real sec
[M::mem_process_seqs] Processed 683296 reads in 172.019 CPU sec, 5.601 real sec
sorting block 0, #reads = 1084644 mem = 536883714 peak = 598835200
[M::process] read 683030 sequences (100000284 bp) in 1.936 CPU sec, 2.085 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 283040, 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: (203, 309, 437)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 905)
[M::mem_pestat] mean and std.dev: (331.36, 162.22)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1139)
[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 682222 sequences (100000055 bp) in 1.468 CPU sec, 1.581 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 282542, 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: (206, 313, 442)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 914)
[M::mem_pestat] mean and std.dev: (334.88, 162.96)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1150)
[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 684142 reads in 146.635 CPU sec, 4.702 real sec
[M::process] read 682230 sequences (100000213 bp) in 1.465 CPU sec, 1.517 real sec...
[M::mem_process_seqs] Processed 683030 reads in 94.526 CPU sec, 3.005 real sec
sorting block 1, #reads = 1084449 mem = 536878796 peak = 812744704
sorting block 2, #reads = 1085469 mem = 536881294 peak = 895946752
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 282272, 4, 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: (208, 314, 443)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 913)
[M::mem_pestat] mean and std.dev: (336.64, 162.73)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1148)
[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 684796 sequences (100000237 bp) in 1.721 CPU sec, 1.807 real sec...
[M::process] read 683652 sequences (100000168 bp) in 1.348 CPU sec, 1.360 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 282976, 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: (210, 318, 450)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 930)
[M::mem_pestat] mean and std.dev: (340.58, 165.72)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1170)
[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 682222 reads in 142.408 CPU sec, 4.575 real sec
[M::mem_process_seqs] Processed 682230 reads in 90.998 CPU sec, 2.921 real sec
sorting block 3, #reads = 1084249 mem = 536878583 peak = 895946752
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 283654, 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: (202, 309, 436)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 904)
[M::mem_pestat] mean and std.dev: (330.15, 160.90)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1138)
[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 681668 sequences (100000212 bp) in 2.018 CPU sec, 2.148 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 282857, 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: (207, 317, 446)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 924)
[M::mem_pestat] mean and std.dev: (336.70, 162.17)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1163)
[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 684296 sequences (100000184 bp) in 1.330 CPU sec, 1.325 real sec...
[M::mem_process_seqs] Processed 684796 reads in 142.015 CPU sec, 4.549 real sec
[M::mem_process_seqs] Processed 683652 reads in 90.125 CPU sec, 2.878 real sec
sorting block 4, #reads = 1086269 mem = 536879011 peak = 895946752
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 282061, 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: (215, 328, 458)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 944)
[M::mem_pestat] mean and std.dev: (346.30, 165.38)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1187)
[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 682698 sequences (100000178 bp) in 2.489 CPU sec, 2.815 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 283601, 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: (203, 311, 442)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 920)
[M::mem_pestat] mean and std.dev: (333.43, 163.35)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1159)
[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 681668 reads in 143.554 CPU sec, 4.628 real sec
[M::mem_process_seqs] Processed 684296 reads in 91.686 CPU sec, 2.923 real sec
sorting block 5, #reads = 1084644 mem = 536879224 peak = 895946752
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 282566, 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: (210, 320, 450)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 930)
[M::mem_pestat] mean and std.dev: (340.41, 163.75)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1170)
[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 682448 sequences (100000047 bp) in 2.884 CPU sec, 3.214 real sec...
[M::mem_process_seqs] Processed 682698 reads in 79.369 CPU sec, 2.648 real sec
sorting block 6, #reads = 1084388 mem = 536880460 peak = 895946752
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 282467, 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: (210, 318, 449)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 927)
[M::mem_pestat] mean and std.dev: (339.16, 163.30)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1166)
[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 682448 reads in 81.177 CPU sec, 2.682 real sec
[M::process] read 682264 sequences (100000042 bp) in 2.825 CPU sec, 3.140 real sec...
sorting block 7, #reads = 1084563 mem = 536881018 peak = 895946752
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 282479, 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: (209, 318, 449)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 929)
[M::mem_pestat] mean and std.dev: (339.85, 164.82)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1169)
[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 682264 reads in 79.992 CPU sec, 2.631 real sec
[M::process] read 685690 sequences (100000278 bp) in 2.491 CPU sec, 2.759 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 284014, 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: (200, 306, 434)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 902)
[M::mem_pestat] mean and std.dev: (327.38, 159.63)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1136)
[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 685690 reads in 79.542 CPU sec, 2.598 real sec
[M::process] read 684156 sequences (100000232 bp) in 2.633 CPU sec, 2.951 real sec...
sorting block 8, #reads = 1083902 mem = 536879100 peak = 895946752
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 282981, 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: (206, 315, 444)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 920)
[M::mem_pestat] mean and std.dev: (334.65, 161.37)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1158)
[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 684156 reads in 79.707 CPU sec, 2.597 real sec
[M::process] read 681780 sequences (100000243 bp) in 2.884 CPU sec, 3.217 real sec...
sorting block 9, #reads = 1086149 mem = 536877778 peak = 895946752
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 281797, 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: (216, 330, 459)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 945)
[M::mem_pestat] mean and std.dev: (346.86, 164.30)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1188)
[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 683110 sequences (100000125 bp) in 1.991 CPU sec, 2.173 real sec...
[M::mem_process_seqs] Processed 681780 reads in 80.044 CPU sec, 2.593 real sec
[M::process] read 682538 sequences (100000253 bp) in 2.331 CPU sec, 2.523 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 283149, 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: (208, 319, 448)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 928)
[M::mem_pestat] mean and std.dev: (338.69, 163.64)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1168)
[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 682128 sequences (100000135 bp) in 1.310 CPU sec, 1.303 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (4, 282319, 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: (211, 323, 451)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 931)
[M::mem_pestat] mean and std.dev: (341.36, 163.12)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1171)
[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 683110 reads in 144.523 CPU sec, 4.556 real sec
[M::process] read 682072 sequences (100000051 bp) in 1.298 CPU sec, 1.310 real sec...
[M::mem_process_seqs] Processed 682538 reads in 90.866 CPU sec, 2.876 real sec
sorting block 10, #reads = 1083843 mem = 536879007 peak = 895946752
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 282346, 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: (212, 323, 452)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 932)
[M::mem_pestat] mean and std.dev: (342.31, 163.81)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1172)
[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 685584 sequences (100000001 bp) in 2.341 CPU sec, 2.685 real sec...
sorting block 11, #reads = 1083384 mem = 536888840 peak = 895946752
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 282364, 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: (210, 320, 452)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 936)
[M::mem_pestat] mean and std.dev: (341.81, 166.04)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1178)
[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 682128 reads in 142.646 CPU sec, 4.568 real sec
[M::mem_process_seqs] Processed 682072 reads in 92.323 CPU sec, 2.947 real sec
[M::process] read 683744 sequences (100000173 bp) in 1.585 CPU sec, 1.632 real sec...
sorting block 12, #reads = 1084196 mem = 536877279 peak = 895946752
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 283166, 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: (200, 305, 430)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 890)
[M::mem_pestat] mean and std.dev: (325.38, 157.91)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1120)
[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 681914 sequences (100000229 bp) in 2.046 CPU sec, 2.188 real sec...
[M::process] read 683742 sequences (100000144 bp) in 1.350 CPU sec, 1.353 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 282708, 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: (207, 315, 442)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 912)
[M::mem_pestat] mean and std.dev: (334.49, 160.72)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1147)
[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 685584 reads in 146.406 CPU sec, 4.697 real sec
[M::mem_process_seqs] Processed 683744 reads in 93.451 CPU sec, 3.004 real sec
sorting block 13, #reads = 1085205 mem = 536879455 peak = 895946752
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 281108, 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: (215, 327, 456)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 938)
[M::mem_pestat] mean and std.dev: (345.32, 163.91)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1179)
[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 682948 sequences (100000064 bp) in 2.034 CPU sec, 2.229 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 282699, 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: (206, 315, 442)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 914)
[M::mem_pestat] mean and std.dev: (334.51, 161.43)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1150)
[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 682626 sequences (100000017 bp) in 1.450 CPU sec, 1.449 real sec...
[M::mem_process_seqs] Processed 681914 reads in 148.891 CPU sec, 4.774 real sec
[M::mem_process_seqs] Processed 683742 reads in 94.985 CPU sec, 3.043 real sec
sorting block 14, #reads = 1084345 mem = 536878810 peak = 895946752
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 283003, 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: (210, 318, 446)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 918)
[M::mem_pestat] mean and std.dev: (338.03, 162.14)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1154)
[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 683168 sequences (100000143 bp) in 2.162 CPU sec, 2.300 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (8, 282498, 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: (209, 318, 447)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 923)
[M::mem_pestat] mean and std.dev: (338.44, 162.50)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1161)
[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 685632 sequences (100000003 bp) in 1.440 CPU sec, 1.436 real sec...
[M::mem_process_seqs] Processed 682948 reads in 147.349 CPU sec, 4.726 real sec
sorting block 15, #reads = 1084699 mem = 536876777 peak = 895946752
[M::mem_process_seqs] Processed 682626 reads in 93.474 CPU sec, 2.982 real sec
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 282484, 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: (207, 313, 444)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 918)
[M::mem_pestat] mean and std.dev: (335.97, 163.68)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1155)
[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 = 1084337 mem = 536877149 peak = 895946752
[M::process] read 683568 sequences (100000137 bp) in 2.055 CPU sec, 2.236 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 283728, 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: (198, 302, 432)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 900)
[M::mem_pestat] mean and std.dev: (326.17, 161.85)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1134)
[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 682854 sequences (100000281 bp) in 1.470 CPU sec, 1.477 real sec...
[M::mem_process_seqs] Processed 683168 reads in 150.242 CPU sec, 4.815 real sec
[M::mem_process_seqs] Processed 685632 reads in 97.325 CPU sec, 3.112 real sec
sorting block 17, #reads = 1084487 mem = 536878256 peak = 895946752
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 282772, 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: (207, 317, 450)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 936)
[M::mem_pestat] mean and std.dev: (338.58, 164.83)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1179)
[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 685226 sequences (100000106 bp) in 2.429 CPU sec, 2.665 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 282704, 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: (208, 316, 443)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 913)
[M::mem_pestat] mean and std.dev: (336.14, 161.63)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1148)
[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 683700 sequences (100000223 bp) in 1.480 CPU sec, 1.471 real sec...
[M::mem_process_seqs] Processed 683568 reads in 152.471 CPU sec, 4.876 real sec
[M::mem_process_seqs] Processed 682854 reads in 97.733 CPU sec, 3.126 real sec
sorting block 18, #reads = 1084250 mem = 536883605 peak = 895946752
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 283524, 0, 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: (198, 298, 420)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 864)
[M::mem_pestat] mean and std.dev: (319.93, 154.78)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1086)
[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 682952 sequences (100000116 bp) in 2.094 CPU sec, 2.249 real sec...
[M::process] read 684552 sequences (100000067 bp) in 1.520 CPU sec, 1.521 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 283097, 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: (205, 309, 432)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 886)
[M::mem_pestat] mean and std.dev: (328.69, 156.99)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1113)
[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 685226 reads in 152.919 CPU sec, 4.890 real sec
[M::mem_process_seqs] Processed 683700 reads in 96.870 CPU sec, 3.099 real sec
sorting block 19, #reads = 1083570 mem = 536887975 peak = 895946752
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 282959, 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: (207, 310, 431)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 879)
[M::mem_pestat] mean and std.dev: (329.36, 156.02)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1103)
[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 685452 sequences (100000210 bp) in 3.227 CPU sec, 3.566 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 283158, 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: (201, 305, 432)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 894)
[M::mem_pestat] mean and std.dev: (327.37, 160.02)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1125)
[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 682952 reads in 157.141 CPU sec, 5.033 real sec
[M::mem_process_seqs] Processed 684552 reads in 100.492 CPU sec, 3.214 real sec
sorting block 20, #reads = 1083601 mem = 536878234 peak = 895946752
[M::process] read 683444 sequences (100000014 bp) in 1.855 CPU sec, 2.010 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 283603, 0, 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: (199, 303, 430)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 892)
[M::mem_pestat] mean and std.dev: (324.91, 158.45)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1123)
[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 = 1081585 mem = 536878488 peak = 952934400
[M::process] read 683768 sequences (100000041 bp) in 2.032 CPU sec, 2.192 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 283025, 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: (206, 314, 440)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 908)
[M::mem_pestat] mean and std.dev: (333.63, 160.31)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1142)
[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 685452 reads in 152.573 CPU sec, 4.888 real sec
[M::process] read 684546 sequences (100000259 bp) in 1.480 CPU sec, 1.479 real sec...
[M::mem_process_seqs] Processed 683444 reads in 96.629 CPU sec, 3.080 real sec
sorting block 22, #reads = 1084162 mem = 536877719 peak = 952934400
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 283028, 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: (205, 312, 437)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 901)
[M::mem_pestat] mean and std.dev: (331.27, 158.53)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1133)
[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 683342 sequences (100000075 bp) in 2.445 CPU sec, 2.595 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 283516, 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: (202, 307, 430)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 886)
[M::mem_pestat] mean and std.dev: (326.33, 156.26)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1114)
[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 683768 reads in 151.321 CPU sec, 4.860 real sec
[M::process] read 682666 sequences (100000053 bp) in 1.662 CPU sec, 1.687 real sec...
[M::mem_process_seqs] Processed 684546 reads in 95.617 CPU sec, 3.040 real sec
sorting block 23, #reads = 1082199 mem = 536880961 peak = 952934400
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 283084, 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: (207, 314, 438)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 900)
[M::mem_pestat] mean and std.dev: (332.73, 158.61)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1131)
[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 685246 sequences (100000046 bp) in 2.126 CPU sec, 2.301 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 283101, 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: (209, 317, 443)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 911)
[M::mem_pestat] mean and std.dev: (336.63, 161.23)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1145)
[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 685088 sequences (100000132 bp) in 1.520 CPU sec, 1.520 real sec...
[M::mem_process_seqs] Processed 683342 reads in 150.149 CPU sec, 4.804 real sec
sorting block 24, #reads = 1083471 mem = 536879050 peak = 952934400
[M::process] read 682750 sequences (100000236 bp) in 1.697 CPU sec, 1.705 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 283184, 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: (199, 302, 430)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 892)
[M::mem_pestat] mean and std.dev: (325.22, 159.23)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1123)
[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 685246 reads in 92.684 CPU sec, 3.170 real sec
[M::mem_process_seqs] Processed 682666 reads in 219.276 CPU sec, 7.228 real sec
sorting block 25, #reads = 1081980 mem = 536879814 peak = 952934400
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 284134, 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: (201, 305, 431)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 891)
[M::mem_pestat] mean and std.dev: (326.24, 158.15)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1121)
[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 683914 sequences (100000213 bp) in 2.318 CPU sec, 2.583 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 282422, 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: (209, 317, 442)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 908)
[M::mem_pestat] mean and std.dev: (335.38, 159.22)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1141)
[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 685088 reads in 163.523 CPU sec, 5.233 real sec
[M::mem_process_seqs] Processed 682750 reads in 95.566 CPU sec, 3.039 real sec
[M::process] read 684042 sequences (100000210 bp) in 1.910 CPU sec, 2.030 real sec...
sorting block 26, #reads = 1083991 mem = 536879258 peak = 952934400
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 283386, 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: (205, 311, 434)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 892)
[M::mem_pestat] mean and std.dev: (329.50, 156.83)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1121)
[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, 283109, 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: (204, 310, 432)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 888)
[M::mem_pestat] mean and std.dev: (327.76, 155.63)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1116)
[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 683408 sequences (100000186 bp) in 3.228 CPU sec, 3.586 real sec...
[M::mem_process_seqs] Processed 683914 reads in 152.978 CPU sec, 4.919 real sec
[M::mem_process_seqs] Processed 684042 reads in 98.427 CPU sec, 3.153 real sec
sorting block 27, #reads = 1082209 mem = 536882376 peak = 952934400
[M::process] read 684010 sequences (100000196 bp) in 2.349 CPU sec, 2.575 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 283207, 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: (206, 311, 434)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 890)
[M::mem_pestat] mean and std.dev: (329.72, 156.48)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1118)
[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 28, #reads = 1084294 mem = 536883649 peak = 952934400
[M::process] read 686844 sequences (100000042 bp) in 2.002 CPU sec, 2.126 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 283891, 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: (204, 310, 436)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 900)
[M::mem_pestat] mean and std.dev: (330.11, 158.61)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1132)
[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 683408 reads in 156.607 CPU sec, 5.025 real sec
[M::mem_process_seqs] Processed 684010 reads in 101.533 CPU sec, 3.235 real sec
[M::process] read 685168 sequences (100000180 bp) in 1.826 CPU sec, 1.895 real sec...
sorting block 29, #reads = 1083040 mem = 536882395 peak = 952934400
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 284452, 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: (193, 293, 423)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 883)
[M::mem_pestat] mean and std.dev: (318.82, 158.52)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1113)
[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 683034 sequences (100000164 bp) in 2.415 CPU sec, 2.602 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 283719, 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: (200, 305, 435)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 905)
[M::mem_pestat] mean and std.dev: (327.49, 160.18)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1140)
[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 684818 sequences (100000148 bp) in 1.450 CPU sec, 1.454 real sec...
[M::mem_process_seqs] Processed 686844 reads in 160.234 CPU sec, 5.131 real sec
[M::mem_process_seqs] Processed 685168 reads in 98.467 CPU sec, 3.160 real sec
sorting block 30, #reads = 1081531 mem = 536879567 peak = 952934400
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 282904, 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: (209, 319, 448)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 926)
[M::mem_pestat] mean and std.dev: (338.36, 161.94)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1165)
[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 683892 sequences (100000089 bp) in 2.907 CPU sec, 3.255 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 283887, 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: (201, 303, 424)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 870)
[M::mem_pestat] mean and std.dev: (321.82, 152.84)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1093)
[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 683034 reads in 150.764 CPU sec, 4.819 real sec
[M::mem_process_seqs] Processed 684818 reads in 95.373 CPU sec, 3.029 real sec
sorting block 31, #reads = 1083882 mem = 536880745 peak = 952934400
[M::process] read 683108 sequences (100000009 bp) in 1.966 CPU sec, 2.075 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (4, 284085, 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: (205, 310, 434)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 892)
[M::mem_pestat] mean and std.dev: (329.01, 156.56)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1121)
[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 678528 sequences (99332802 bp) in 2.315 CPU sec, 2.554 real sec...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (2, 282993, 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: (206, 311, 433)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 887)
[M::mem_pestat] mean and std.dev: (329.32, 155.79)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1114)
[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 683892 reads in 142.275 CPU sec, 4.578 real sec
sorting block 32, #reads = 1083478 mem = 536883092 peak = 952934400
[M::mem_process_seqs] Processed 683108 reads in 89.900 CPU sec, 2.898 real sec
sorting block 33, #reads = 1083988 mem = 536879230 peak = 968069120
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (0, 281067, 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: (207, 314, 440)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 906)
[M::mem_pestat] mean and std.dev: (333.38, 159.21)
[M::mem_pestat] low and high boundaries for proper pairs: (1, 1139)
[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 678528 reads in 78.300 CPU sec, 2.621 real sec
os version: Linux 6.12.88
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: 37593890
overall: 69703823360 mem 6088.444 user 559.702 sys 1171.206 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_0I-N1-BDNA-1_B23KGCJLT4_1.L004\tPU:L004\tSM:1029_0I-N1-BDNA-1_B23KGCJLT4_1\tLB:1029_0I-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_0I-N1-BDNA-1_B23KGCJLT4_1_R1.fastq.gz 1029_0I-N1-BDNA-1_B23KGCJLT4_1_R2.fastq.gz
[main] Real time: 1171.239 sec; CPU: 6648.155 sec
sorting block 34, #reads = 882716 mem = 438012559 peak = 968069120
uniq header count 1
merging 35 blocks
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
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 384
algo: util-sort
license: sentieon:util=1
output file size: 2050580256
output reads: 37737169
bam_mem_sort: 35 calls 13.933 user 0.426 sys 14.420 real
bam_write: 35 calls 22.568 user 0.595 sys 23.426 real
execute: 1 calls 7.355 user 0.801 sys 1183.658 real
merge_files: 1 calls 7.337 user 0.772 sys 11.189 real
parse_chunk: 558 calls 17.940 user 5.884 sys 24.209 real
read_chunk: 1505 calls 16.820 user 15.738 sys 151.666 real
sort_block: 1 calls 16.022 user 15.182 sys 148.660 real
write_chunk: 945 calls 7.012 user 0.594 sys 10.461 real
overall: 2165227520 mem 417.290 user 30.958 sys 1183.677 real
ls: cannot access '*.cram': No such file or directory