cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1029_BH0W-N1-BDNA-1_B23KFG5LT4_1.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info 1029_BH0W-N1-BDNA-1_B23KFG5LT4_1.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:188000001, elapsed 0.8s, est remaining 15.3s, peak mem 1697MB, user 16.7s, sys 1.6s, output queue size 146
progress 10% @chr2:46000001, elapsed 1.4s, est remaining 13.0s, peak mem 2155MB, user 35.9s, sys 2.3s, output queue size 166
progress 15% @chr3:4000001, elapsed 2.2s, est remaining 12.7s, peak mem 2841MB, user 57.8s, sys 2.9s, output queue size 203
progress 20% @chr3:167000001, elapsed 2.9s, est remaining 11.6s, peak mem 3168MB, user 76.8s, sys 4.2s, output queue size 364
progress 25% @chr4:99000001, elapsed 3.5s, est remaining 10.6s, peak mem 3343MB, user 92.3s, sys 5.0s, output queue size 525
progress 30% @chr5:106000001, elapsed 4.0s, est remaining 9.3s, peak mem 3523MB, user 107.9s, sys 5.6s, output queue size 687
progress 35% @chr6:91000001, elapsed 4.6s, est remaining 8.5s, peak mem 3593MB, user 127.1s, sys 6.7s, output queue size 625
progress 40% @chr7:79000001, elapsed 5.3s, est remaining 7.9s, peak mem 3762MB, user 143.5s, sys 7.0s, output queue size 786
progress 45% @chr8:82000001, elapsed 6.1s, est remaining 7.5s, peak mem 3859MB, user 168.0s, sys 7.9s, output queue size 948
progress 50% @chr9:94000001, elapsed 6.8s, est remaining 6.8s, peak mem 4057MB, user 186.4s, sys 8.2s, output queue size 1110
progress 55% @chr10:32000001, elapsed 7.6s, est remaining 6.2s, peak mem 4156MB, user 210.0s, sys 8.5s, output queue size 1271
progress 60% @chr12:5000001, elapsed 8.4s, est remaining 5.6s, peak mem 4162MB, user 235.9s, sys 9.0s, output queue size 689
progress 65% @chr12:106000001, elapsed 9.2s, est remaining 5.0s, peak mem 4222MB, user 257.0s, sys 9.3s, output queue size 851
progress 70% @chr14:82000001, elapsed 9.7s, est remaining 4.1s, peak mem 4231MB, user 275.2s, sys 9.8s, output queue size 833
progress 75% @chr16:41000001, elapsed 10.6s, est remaining 3.5s, peak mem 4339MB, user 298.7s, sys 10.1s, output queue size 995
progress 80% @chr18:25000001, elapsed 11.9s, est remaining 3.0s, peak mem 4442MB, user 336.1s, sys 10.6s, output queue size 1157
progress 85% @chr20:36000001, elapsed 13.2s, est remaining 2.3s, peak mem 4501MB, user 367.2s, sys 11.0s, output queue size 1319
progress 90% @chrX:42000001, elapsed 13.9s, est remaining 1.5s, peak mem 4569MB, user 402.9s, sys 11.3s, output queue size 947
progress 95% @chrY:52000001, elapsed 14.3s, est remaining 0.8s, peak mem 4624MB, user 414.9s, sys 11.5s, output queue size 1109
progress 100% @chr15:88000001, elapsed 19.4s, est remaining 0.0s, peak mem 4624MB, user 449.2s, sys 11.9s, output queue size 4099
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: LocusCollector
license: sentieon:Dedup=31
input file size: 14415584908
reads: 322449698
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.654 user 0.135 sys 1.098 real
VcfLineRecordHelper::sort: 33 calls 1.264 user 0.099 sys 1.384 real
advance: 3219322 calls 256.593 user 8.153 sys 265.564 real
calc: 3219322 calls 82.649 user 1.071 sys 85.315 real
done: 1 calls 0.654 user 0.135 sys 1.098 real
execute: 1 calls 0.000 user 0.002 sys 19.425 real
fetch: 3219322 calls 93.452 user 1.017 sys 93.223 real
idle: 222 calls 0.124 user 0.003 sys 199.933 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 4848857088 mem 454.741 user 12.553 sys 21.559 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1029_BH0W-N1-BDNA-1_B23KFG5LT4_1.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info 1029_BH0W-N1-BDNA-1_B23KFG5LT4_1.md.score --metrics 1029_BH0W-N1-BDNA-1_B23KFG5LT4_1.md.metrics 1029_BH0W-N1-BDNA-1_B23KFG5LT4_1.md.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:174000001, elapsed 5.6s, est remaining 105.8s, peak mem 2129MB, user 137.4s, sys 3.1s, output queue size 145
progress 10% @chr2:71000001, elapsed 9.7s, est remaining 87.2s, peak mem 2856MB, user 271.0s, sys 4.9s, output queue size 117
progress 15% @chr3:4000001, elapsed 15.0s, est remaining 85.0s, peak mem 3815MB, user 419.7s, sys 6.8s, output queue size 203
progress 20% @chr3:155000001, elapsed 19.9s, est remaining 79.4s, peak mem 3829MB, user 570.0s, sys 9.9s, output queue size 174
progress 25% @chr4:136000001, elapsed 23.7s, est remaining 71.2s, peak mem 3873MB, user 693.6s, sys 11.4s, output queue size 302
progress 30% @chr5:101000001, elapsed 26.8s, est remaining 62.6s, peak mem 3903MB, user 789.6s, sys 12.8s, output queue size 464
progress 35% @chr6:81000001, elapsed 31.1s, est remaining 57.7s, peak mem 3958MB, user 902.9s, sys 14.3s, output queue size 625
progress 40% @chr7:48000001, elapsed 36.2s, est remaining 54.2s, peak mem 4120MB, user 1039.5s, sys 15.9s, output queue size 786
progress 45% @chr8:69000001, elapsed 42.3s, est remaining 51.7s, peak mem 4148MB, user 1245.6s, sys 17.2s, output queue size 204
progress 50% @chr9:81000001, elapsed 47.3s, est remaining 47.3s, peak mem 4229MB, user 1370.3s, sys 18.4s, output queue size 366
progress 55% @chr10:115000001, elapsed 53.8s, est remaining 44.1s, peak mem 4266MB, user 1549.3s, sys 19.9s, output queue size 527
progress 60% @chr12:1000001, elapsed 60.4s, est remaining 40.3s, peak mem 4295MB, user 1749.1s, sys 21.3s, output queue size 689
progress 65% @chr13:31000001, elapsed 67.3s, est remaining 36.3s, peak mem 4322MB, user 1966.1s, sys 22.9s, output queue size 672
progress 70% @chr14:84000001, elapsed 70.9s, est remaining 30.4s, peak mem 4322MB, user 2074.8s, sys 23.9s, output queue size 833
progress 75% @chr16:41000001, elapsed 77.5s, est remaining 25.8s, peak mem 4377MB, user 2266.0s, sys 25.4s, output queue size 995
progress 80% @chr17:78000001, elapsed 88.3s, est remaining 22.1s, peak mem 4377MB, user 2552.6s, sys 27.0s, output queue size 1157
progress 85% @chr20:39000001, elapsed 97.4s, est remaining 17.2s, peak mem 4377MB, user 2854.3s, sys 28.9s, output queue size 1319
progress 90% @chrX:31000001, elapsed 102.8s, est remaining 11.4s, peak mem 4462MB, user 3078.1s, sys 30.0s, output queue size 513
progress 95% @chrY:53000001, elapsed 106.0s, est remaining 5.6s, peak mem 4462MB, user 3163.9s, sys 30.7s, output queue size 675
progress 100% @chr15:88000001, elapsed 117.4s, est remaining 0.0s, peak mem 4462MB, user 3306.9s, sys 31.8s, output queue size 4099
library 1029_BH0W-N1-BDNA-1_B23KFG5LT4_1:
chimeric_paired 3392921
duped 135737855
duped_chimeric_paired 401462
duped_paired 135736563
duped_unpaired 1292
optical_dup 44722518
paired 321118344
reads 322447060
secondary_supplementary 1325240
unmapped 4376
unpaired 1738
optical dup clusters 23422021, maxdup 29, total optical dup pairs 44722518
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: Dedup
license: sentieon:Dedup=31
input file size: 14415584908
reads: 322449698
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 2096320 calls 4.839 user 0.172 sys 5.302 real
MateInfoByVcf::load: 2096320 calls 1019.653 user 9.468 sys 960.593 real
MateInfoByVcf::parse_events: 2096320 calls 974.115 user 8.348 sys 935.653 real
advance: 3219322 calls 257.665 user 7.159 sys 301.701 real
calc: 3219322 calls 1803.769 user 11.572 sys 1868.756 real
done: 1 calls 0.067 user 0.019 sys 0.087 real
exec_no_coor: 1 calls 0.000 user 0.019 sys 0.024 real
execute: 1 calls 0.006 user 0.002 sys 118.087 real
fetch: 3219323 calls 153.063 user 1.019 sys 144.321 real
find_pairEnds: 2096320 calls 157.241 user 0.573 sys 167.846 real
idle: 21162 calls 11.946 user 0.190 sys 297.017 real
init: 1 calls 0.000 user 0.000 sys 0.006 real
markDup: 2096320 calls 606.804 user 3.638 sys 656.049 real
vcfadvance: 2096320 calls 3.163 user 0.491 sys 3.483 real
write: 3219323 calls 1186.323 user 7.085 sys 1199.121 real
overall: 4679569408 mem 3323.561 user 36.936 sys 118.580 real