cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1136_253-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info 1136_253-T1-TDNA-1_A23MHWWLT4_1.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:154000001, elapsed 4.3s, est remaining 82.6s, peak mem 5794MB, user 96.1s, sys 5.4s, output queue size 146
progress 10% @chr1:243000001, elapsed 8.4s, est remaining 76.0s, peak mem 8203MB, user 211.3s, sys 8.4s, output queue size 166
progress 15% @chr2:232000001, elapsed 12.6s, est remaining 71.2s, peak mem 10701MB, user 330.4s, sys 16.4s, output queue size 203
progress 20% @chr3:160000001, elapsed 15.7s, est remaining 62.7s, peak mem 11673MB, user 421.6s, sys 22.6s, output queue size 364
progress 25% @chr4:135000001, elapsed 18.5s, est remaining 55.4s, peak mem 11729MB, user 509.0s, sys 28.0s, output queue size 444
progress 30% @chr5:106000001, elapsed 20.6s, est remaining 48.2s, peak mem 12173MB, user 565.7s, sys 28.8s, output queue size 606
progress 35% @chr6:82000001, elapsed 23.8s, est remaining 44.2s, peak mem 12173MB, user 665.8s, sys 31.0s, output queue size 625
progress 40% @chr7:66000001, elapsed 27.2s, est remaining 40.8s, peak mem 12611MB, user 751.1s, sys 32.2s, output queue size 786
progress 45% @chr8:77000001, elapsed 30.9s, est remaining 37.8s, peak mem 12784MB, user 880.3s, sys 34.0s, output queue size 356
progress 50% @chr9:94000001, elapsed 34.1s, est remaining 34.1s, peak mem 13124MB, user 968.1s, sys 35.1s, output queue size 366
progress 55% @chr10:103000001, elapsed 37.6s, est remaining 30.8s, peak mem 13324MB, user 1066.9s, sys 36.3s, output queue size 527
progress 60% @chr11:65000001, elapsed 41.5s, est remaining 27.7s, peak mem 13324MB, user 1191.4s, sys 37.5s, output queue size 510
progress 65% @chr12:56000001, elapsed 45.3s, est remaining 24.4s, peak mem 13324MB, user 1297.3s, sys 38.6s, output queue size 672
progress 70% @chr14:69000001, elapsed 47.4s, est remaining 20.3s, peak mem 13337MB, user 1376.0s, sys 39.2s, output queue size 635
progress 75% @chr16:42000001, elapsed 51.7s, est remaining 17.2s, peak mem 13393MB, user 1511.4s, sys 40.4s, output queue size 461
progress 80% @chr18:11000001, elapsed 57.9s, est remaining 14.5s, peak mem 13892MB, user 1677.0s, sys 41.7s, output queue size 623
progress 85% @chr19:57000001, elapsed 63.2s, est remaining 11.2s, peak mem 13892MB, user 1833.2s, sys 42.7s, output queue size 785
progress 90% @chrX:34000001, elapsed 66.6s, est remaining 7.4s, peak mem 14007MB, user 1944.1s, sys 43.6s, output queue size 947
progress 95% @chrY:54000001, elapsed 68.7s, est remaining 3.6s, peak mem 14182MB, user 2000.3s, sys 44.3s, output queue size 1109
progress 100% @chr15:88000001, elapsed 84.7s, est remaining 0.0s, peak mem 14182MB, user 2155.1s, sys 45.5s, output queue size 4099
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: 69582924033
reads: 1300983781
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 1.895 user 0.583 sys 3.479 real
VcfLineRecordHelper::sort: 94 calls 3.961 user 0.250 sys 4.167 real
advance: 3219322 calls 1153.332 user 37.977 sys 1192.589 real
calc: 3219322 calls 419.797 user 3.455 sys 428.288 real
done: 1 calls 1.895 user 0.583 sys 3.479 real
execute: 1 calls 0.010 user 0.001 sys 84.706 real
fetch: 3219322 calls 497.167 user 2.244 sys 496.369 real
idle: 596 calls 0.176 user 0.002 sys 558.972 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 14871900160 mem 2167.018 user 46.928 sys 89.412 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1136_253-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info 1136_253-T1-TDNA-1_A23MHWWLT4_1.md.score --metrics 1136_253-T1-TDNA-1_A23MHWWLT4_1.md.metrics 1136_253-T1-TDNA-1_A23MHWWLT4_1.md.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:153000001, elapsed 31.6s, est remaining 600.6s, peak mem 6768MB, user 790.2s, sys 8.9s, output queue size 42
progress 10% @chr2:79000001, elapsed 58.1s, est remaining 522.5s, peak mem 11187MB, user 1624.0s, sys 13.8s, output queue size 117
progress 15% @chr2:201000001, elapsed 84.7s, est remaining 479.9s, peak mem 12884MB, user 2432.3s, sys 18.5s, output queue size 203
progress 20% @chr3:168000001, elapsed 108.8s, est remaining 435.2s, peak mem 12884MB, user 3160.8s, sys 23.5s, output queue size 283
progress 25% @chr4:87000001, elapsed 128.4s, est remaining 385.2s, peak mem 12999MB, user 3790.3s, sys 26.3s, output queue size 302
progress 30% @chr5:1, elapsed 144.9s, est remaining 338.2s, peak mem 13393MB, user 4313.5s, sys 28.7s, output queue size 464
progress 35% @chr6:78000001, elapsed 168.0s, est remaining 312.0s, peak mem 13913MB, user 4915.2s, sys 31.3s, output queue size 625
progress 40% @chr7:70000001, elapsed 192.2s, est remaining 288.3s, peak mem 14013MB, user 5737.8s, sys 34.5s, output queue size 195
progress 45% @chr8:54000001, elapsed 218.8s, est remaining 267.4s, peak mem 14202MB, user 6510.5s, sys 37.8s, output queue size 204
progress 50% @chr9:88000001, elapsed 242.7s, est remaining 242.7s, peak mem 14651MB, user 7121.7s, sys 40.3s, output queue size 366
progress 55% @chr10:104000001, elapsed 269.4s, est remaining 220.4s, peak mem 14933MB, user 7990.7s, sys 43.9s, output queue size 348
progress 60% @chr12:3000001, elapsed 298.0s, est remaining 198.6s, peak mem 14933MB, user 8855.7s, sys 47.3s, output queue size 510
progress 65% @chr12:56000001, elapsed 325.0s, est remaining 175.0s, peak mem 15336MB, user 9730.6s, sys 50.3s, output queue size 474
progress 70% @chr14:78000001, elapsed 341.7s, est remaining 146.5s, peak mem 15336MB, user 10305.0s, sys 52.3s, output queue size 299
progress 75% @chr16:42000001, elapsed 372.0s, est remaining 124.0s, peak mem 15386MB, user 11140.2s, sys 55.4s, output queue size 461
progress 80% @chr17:58000001, elapsed 418.0s, est remaining 104.5s, peak mem 15766MB, user 12392.7s, sys 59.7s, output queue size 623
progress 85% @chr19:15000001, elapsed 456.0s, est remaining 80.5s, peak mem 15823MB, user 13557.4s, sys 63.8s, output queue size 785
progress 90% @chrX:30000001, elapsed 483.1s, est remaining 53.7s, peak mem 15989MB, user 14517.0s, sys 67.9s, output queue size 513
progress 95% @chrY:55000001, elapsed 498.4s, est remaining 26.2s, peak mem 16044MB, user 14984.3s, sys 70.0s, output queue size 675
progress 100% @chr22:23000001, elapsed 558.5s, est remaining 0.0s, peak mem 16044MB, user 15711.1s, sys 73.5s, output queue size 3635
library 1136_253-T1-TDNA-1_A23MHWWLT4_1:
chimeric_paired 25168162
duped 773040320
duped_chimeric_paired 5848380
duped_paired 773034812
duped_unpaired 5508
optical_dup 129745165
paired 1290998276
reads 1300979201
secondary_supplementary 9968143
unmapped 10971
unpaired 6391
optical dup clusters 65905402, maxdup 84, total optical dup pairs 129745165
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: 69582924033
reads: 1300983781
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 2679713 calls 16.418 user 0.375 sys 17.225 real
MateInfoByVcf::load: 2679713 calls 2411.487 user 11.068 sys 2359.234 real
MateInfoByVcf::parse_events: 2679713 calls 2304.700 user 9.377 sys 2293.691 real
advance: 3219322 calls 1114.483 user 22.074 sys 1185.872 real
calc: 3219322 calls 11383.788 user 34.719 sys 11502.748 real
done: 1 calls 0.055 user 0.020 sys 0.079 real
exec_no_coor: 1 calls 0.000 user 0.015 sys 0.021 real
execute: 1 calls 0.001 user 0.002 sys 559.263 real
fetch: 3219323 calls 582.869 user 1.561 sys 562.519 real
find_pairEnds: 2679713 calls 690.577 user 1.264 sys 709.071 real
idle: 68679 calls 38.579 user 0.592 sys 1483.260 real
init: 1 calls 0.009 user 0.001 sys 0.006 real
markDup: 2679713 calls 2612.964 user 7.700 sys 2693.745 real
vcfadvance: 2679713 calls 8.840 user 1.295 sys 9.257 real
write: 3219323 calls 8714.541 user 25.686 sys 8747.326 real
overall: 16823750656 mem 15759.700 user 95.683 sys 560.827 real