cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1029_FRC-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info 1029_FRC-T1-TDNA-1_A23MHWWLT4_1.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:160000001, elapsed 4.3s, est remaining 80.8s, peak mem 5559MB, user 96.3s, sys 4.4s, output queue size 146
progress 10% @chr2:90000001, elapsed 7.8s, est remaining 69.8s, peak mem 7558MB, user 206.2s, sys 10.2s, output queue size 117
progress 15% @chr2:214000001, elapsed 11.7s, est remaining 66.1s, peak mem 10017MB, user 317.9s, sys 13.4s, output queue size 203
progress 20% @chr3:174000001, elapsed 15.0s, est remaining 60.2s, peak mem 10508MB, user 414.9s, sys 16.0s, output queue size 283
progress 25% @chr4:129000001, elapsed 17.9s, est remaining 53.8s, peak mem 10906MB, user 512.1s, sys 17.6s, output queue size 302
progress 30% @chr5:107000001, elapsed 20.3s, est remaining 47.4s, peak mem 10906MB, user 586.1s, sys 18.9s, output queue size 464
progress 35% @chr6:82000001, elapsed 23.7s, est remaining 44.1s, peak mem 11794MB, user 671.2s, sys 20.5s, output queue size 625
progress 40% @chr7:47000001, elapsed 27.6s, est remaining 41.5s, peak mem 12043MB, user 777.4s, sys 22.8s, output queue size 786
progress 45% @chr8:67000001, elapsed 31.9s, est remaining 39.0s, peak mem 12945MB, user 902.9s, sys 24.7s, output queue size 948
progress 50% @chr9:93000001, elapsed 36.2s, est remaining 36.2s, peak mem 14288MB, user 1000.5s, sys 25.7s, output queue size 1110
progress 55% @chr10:104000001, elapsed 40.7s, est remaining 33.3s, peak mem 14582MB, user 1158.1s, sys 28.2s, output queue size 527
progress 60% @chr11:134000001, elapsed 45.2s, est remaining 30.1s, peak mem 14582MB, user 1303.7s, sys 29.9s, output queue size 689
progress 65% @chr13:33000001, elapsed 49.3s, est remaining 26.6s, peak mem 14582MB, user 1423.5s, sys 31.4s, output queue size 672
progress 70% @chr14:83000001, elapsed 51.9s, est remaining 22.2s, peak mem 14582MB, user 1513.0s, sys 32.4s, output queue size 635
progress 75% @chr16:41000001, elapsed 56.3s, est remaining 18.8s, peak mem 14582MB, user 1638.3s, sys 33.8s, output queue size 797
progress 80% @chr18:29000001, elapsed 62.8s, est remaining 15.7s, peak mem 14582MB, user 1826.1s, sys 35.4s, output queue size 623
progress 85% @chr20:23000001, elapsed 68.0s, est remaining 12.0s, peak mem 14582MB, user 1990.4s, sys 36.6s, output queue size 785
progress 90% @chrX:30000001, elapsed 71.8s, est remaining 8.0s, peak mem 14845MB, user 2113.4s, sys 37.8s, output queue size 947
progress 95% @chrY:53000001, elapsed 74.4s, est remaining 3.9s, peak mem 15008MB, user 2184.4s, sys 38.4s, output queue size 1109
progress 100% @chr22:23000001, elapsed 84.1s, est remaining 0.0s, peak mem 15008MB, user 2333.4s, sys 39.3s, output queue size 3635
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 192
algo: LocusCollector
license: sentieon:Dedup=31
input file size: 70976611936
reads: 1429869427
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 1.533 user 0.496 sys 2.432 real
VcfLineRecordHelper::sort: 68 calls 3.073 user 0.249 sys 3.311 real
advance: 3219322 calls 1212.713 user 31.892 sys 1249.170 real
calc: 3219322 calls 466.891 user 3.185 sys 470.072 real
done: 1 calls 1.533 user 0.496 sys 2.432 real
execute: 1 calls 0.002 user 0.004 sys 84.111 real
fetch: 3219322 calls 557.661 user 2.406 sys 558.132 real
idle: 354 calls 0.158 user 0.012 sys 336.237 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 15737954304 mem 2343.849 user 40.525 sys 87.838 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1029_FRC-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info 1029_FRC-T1-TDNA-1_A23MHWWLT4_1.md.score --metrics 1029_FRC-T1-TDNA-1_A23MHWWLT4_1.md.metrics 1029_FRC-T1-TDNA-1_A23MHWWLT4_1.md.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:175000001, elapsed 29.6s, est remaining 563.0s, peak mem 7038MB, user 716.4s, sys 9.4s, output queue size 145
progress 10% @chr1:205000001, elapsed 52.4s, est remaining 471.6s, peak mem 10136MB, user 1490.9s, sys 15.1s, output queue size 117
progress 15% @chr2:177000001, elapsed 78.7s, est remaining 445.9s, peak mem 11472MB, user 2237.6s, sys 19.5s, output queue size 203
progress 20% @chr3:173000001, elapsed 103.2s, est remaining 412.9s, peak mem 12052MB, user 3015.9s, sys 24.6s, output queue size 141
progress 25% @chr4:124000001, elapsed 123.4s, est remaining 370.2s, peak mem 12181MB, user 3627.1s, sys 27.6s, output queue size 302
progress 30% @chr5:104000001, elapsed 140.3s, est remaining 327.4s, peak mem 12501MB, user 4176.6s, sys 30.3s, output queue size 464
progress 35% @chr6:78000001, elapsed 164.4s, est remaining 305.4s, peak mem 13046MB, user 4806.1s, sys 33.7s, output queue size 625
progress 40% @chr7:48000001, elapsed 192.2s, est remaining 288.3s, peak mem 13063MB, user 5567.4s, sys 37.2s, output queue size 786
progress 45% @chr8:77000001, elapsed 222.5s, est remaining 271.9s, peak mem 13974MB, user 6443.7s, sys 41.0s, output queue size 948
progress 50% @chr8:144000001, elapsed 249.5s, est remaining 249.5s, peak mem 14833MB, user 7268.4s, sys 44.7s, output queue size 366
progress 55% @chr10:103000001, elapsed 280.9s, est remaining 229.8s, peak mem 15316MB, user 8197.4s, sys 48.3s, output queue size 527
progress 60% @chr11:130000001, elapsed 311.0s, est remaining 207.3s, peak mem 15316MB, user 9230.9s, sys 52.2s, output queue size 510
progress 65% @chr12:123000001, elapsed 338.5s, est remaining 182.3s, peak mem 15441MB, user 10083.6s, sys 55.8s, output queue size 474
progress 70% @chr14:82000001, elapsed 356.4s, est remaining 152.7s, peak mem 15441MB, user 10665.7s, sys 58.1s, output queue size 635
progress 75% @chr16:42000001, elapsed 387.9s, est remaining 129.3s, peak mem 15483MB, user 11571.4s, sys 61.7s, output queue size 461
progress 80% @chr18:9000001, elapsed 432.5s, est remaining 108.1s, peak mem 16085MB, user 12817.3s, sys 66.5s, output queue size 623
progress 85% @chr20:29000001, elapsed 467.3s, est remaining 82.5s, peak mem 16085MB, user 13989.4s, sys 70.6s, output queue size 785
progress 90% @chrX:15000001, elapsed 495.1s, est remaining 55.0s, peak mem 16085MB, user 14756.4s, sys 73.2s, output queue size 947
progress 95% @chrY:54000001, elapsed 513.8s, est remaining 27.0s, peak mem 16085MB, user 15207.5s, sys 75.2s, output queue size 1109
progress 100% @chr15:88000001, elapsed 559.9s, est remaining 0.0s, peak mem 16085MB, user 16113.0s, sys 78.4s, output queue size 4099
library 1029_FRC-T1-TDNA-1_A23MHWWLT4_1:
chimeric_paired 22773178
duped 923303600
duped_chimeric_paired 5702280
duped_paired 923297778
duped_unpaired 5822
optical_dup 151935910
paired 1419865246
reads 1429862891
secondary_supplementary 9984261
unmapped 13228
unpaired 6692
optical dup clusters 68180965, maxdup 79, total optical dup pairs 151935910
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 192
algo: Dedup
license: sentieon:Dedup=31
input file size: 70976611936
reads: 1429869427
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 2661065 calls 15.001 user 0.285 sys 15.717 real
MateInfoByVcf::load: 2661065 calls 2313.355 user 11.267 sys 2248.480 real
MateInfoByVcf::parse_events: 2661065 calls 2201.373 user 9.489 sys 2179.888 real
advance: 3219322 calls 1168.299 user 23.953 sys 1257.645 real
calc: 3219322 calls 11732.339 user 38.086 sys 11862.541 real
done: 1 calls 0.067 user 0.008 sys 0.078 real
exec_no_coor: 1 calls 0.000 user 0.024 sys 0.028 real
execute: 1 calls 0.003 user 0.000 sys 562.893 real
fetch: 3219323 calls 654.106 user 1.598 sys 640.920 real
find_pairEnds: 2661065 calls 787.333 user 1.011 sys 809.460 real
idle: 65386 calls 30.477 user 0.707 sys 1175.330 real
init: 1 calls 0.006 user 0.000 sys 0.006 real
markDup: 2661065 calls 2996.549 user 7.518 sys 3092.678 real
vcfadvance: 2661065 calls 7.307 user 0.939 sys 8.038 real
write: 3219323 calls 8666.616 user 29.332 sys 8694.421 real
overall: 16867045376 mem 16152.485 user 101.182 sys 564.300 real