cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1029_BCAN-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info 1029_BCAN-T1-TDNA-1_A23MHWWLT4_1.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:170000001, elapsed 1.6s, est remaining 30.6s, peak mem 1262MB, user 40.5s, sys 1.6s, output queue size 42
progress 10% @chr2:68000001, elapsed 2.9s, est remaining 25.7s, peak mem 1798MB, user 80.3s, sys 2.2s, output queue size 70
progress 15% @chr2:177000001, elapsed 4.3s, est remaining 24.5s, peak mem 2298MB, user 123.2s, sys 3.4s, output queue size 122
progress 20% @chr3:154000001, elapsed 5.7s, est remaining 22.8s, peak mem 2361MB, user 166.6s, sys 4.0s, output queue size 141
progress 25% @chr4:110000001, elapsed 6.9s, est remaining 20.7s, peak mem 2473MB, user 202.7s, sys 4.6s, output queue size 302
progress 30% @chr5:94000001, elapsed 7.9s, est remaining 18.4s, peak mem 2473MB, user 235.5s, sys 5.4s, output queue size 19
progress 35% @chr6:76000001, elapsed 9.3s, est remaining 17.2s, peak mem 2711MB, user 271.4s, sys 5.9s, output queue size 70
progress 40% @chr7:70000001, elapsed 10.6s, est remaining 15.9s, peak mem 2859MB, user 312.6s, sys 6.6s, output queue size 195
progress 45% @chr8:69000001, elapsed 12.1s, est remaining 14.7s, peak mem 2907MB, user 355.4s, sys 7.1s, output queue size 204
progress 50% @chr9:79000001, elapsed 13.2s, est remaining 13.2s, peak mem 2982MB, user 391.2s, sys 7.6s, output queue size 187
progress 55% @chr10:95000001, elapsed 14.6s, est remaining 11.9s, peak mem 2982MB, user 433.0s, sys 8.0s, output queue size 348
progress 60% @chr12:5000001, elapsed 16.0s, est remaining 10.7s, peak mem 3050MB, user 479.6s, sys 8.7s, output queue size 59
progress 65% @chr13:26000001, elapsed 17.4s, est remaining 9.3s, peak mem 3112MB, user 519.5s, sys 9.1s, output queue size 138
progress 70% @chr14:66000001, elapsed 18.4s, est remaining 7.9s, peak mem 3112MB, user 553.1s, sys 9.5s, output queue size 299
progress 75% @chr16:40000001, elapsed 19.7s, est remaining 6.6s, peak mem 3189MB, user 588.0s, sys 9.9s, output queue size 461
progress 80% @chr18:15000001, elapsed 21.7s, est remaining 5.4s, peak mem 3303MB, user 645.4s, sys 10.4s, output queue size 189
progress 85% @chr20:21000001, elapsed 23.4s, est remaining 4.1s, peak mem 3473MB, user 705.6s, sys 11.1s, output queue size 206
progress 90% @chrX:35000001, elapsed 24.6s, est remaining 2.7s, peak mem 3473MB, user 743.8s, sys 11.7s, output queue size 78
progress 95% @chrY:6000001, elapsed 25.6s, est remaining 1.3s, peak mem 3473MB, user 775.7s, sys 12.2s, output queue size 211
progress 100% @chr22:23000001, elapsed 26.6s, est remaining 0.0s, peak mem 3473MB, user 791.3s, sys 12.4s, 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: 33887840977
reads: 539909111
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.287 user 0.091 sys 0.398 real
VcfLineRecordHelper::sort: 32 calls 0.473 user 0.010 sys 0.519 real
advance: 3219322 calls 538.217 user 9.178 sys 547.859 real
calc: 3219322 calls 125.637 user 0.888 sys 127.611 real
done: 1 calls 0.287 user 0.091 sys 0.398 real
execute: 1 calls 0.001 user 0.009 sys 26.626 real
fetch: 3219322 calls 107.030 user 0.891 sys 108.335 real
idle: 102 calls 0.110 user 0.002 sys 61.994 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 3642310656 mem 794.131 user 12.769 sys 28.135 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1029_BCAN-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info 1029_BCAN-T1-TDNA-1_A23MHWWLT4_1.md.score --metrics 1029_BCAN-T1-TDNA-1_A23MHWWLT4_1.md.metrics 1029_BCAN-T1-TDNA-1_A23MHWWLT4_1.md.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:151000001, elapsed 10.8s, est remaining 205.7s, peak mem 1978MB, user 285.4s, sys 3.3s, output queue size 42
progress 10% @chr2:79000001, elapsed 19.8s, est remaining 177.8s, peak mem 2833MB, user 568.5s, sys 5.8s, output queue size 48
progress 15% @chr2:237000001, elapsed 29.3s, est remaining 166.1s, peak mem 3182MB, user 867.6s, sys 8.2s, output queue size 16
progress 20% @chr3:164000001, elapsed 38.9s, est remaining 155.7s, peak mem 3210MB, user 1156.2s, sys 10.4s, output queue size 141
progress 25% @chr4:99000001, elapsed 47.4s, est remaining 142.1s, peak mem 3331MB, user 1429.4s, sys 12.1s, output queue size 16
progress 30% @chr5:79000001, elapsed 54.6s, est remaining 127.3s, peak mem 3336MB, user 1651.1s, sys 13.7s, output queue size 18
progress 35% @chr6:72000001, elapsed 64.4s, est remaining 119.5s, peak mem 3534MB, user 1918.4s, sys 15.4s, output queue size 39
progress 40% @chr7:54000001, elapsed 73.6s, est remaining 110.3s, peak mem 3789MB, user 2235.3s, sys 17.6s, output queue size 42
progress 45% @chr8:65000001, elapsed 83.7s, est remaining 102.3s, peak mem 3836MB, user 2526.1s, sys 19.6s, output queue size 77
progress 50% @chr9:76000001, elapsed 92.0s, est remaining 92.0s, peak mem 4020MB, user 2780.6s, sys 21.2s, output queue size 187
progress 55% @chr10:108000001, elapsed 101.4s, est remaining 82.9s, peak mem 4020MB, user 3070.2s, sys 22.9s, output queue size 98
progress 60% @chr11:129000001, elapsed 111.0s, est remaining 74.0s, peak mem 4034MB, user 3366.3s, sys 24.7s, output queue size 59
progress 65% @chr13:34000001, elapsed 120.6s, est remaining 64.9s, peak mem 4118MB, user 3646.9s, sys 26.4s, output queue size 138
progress 70% @chr14:66000001, elapsed 127.7s, est remaining 54.7s, peak mem 4118MB, user 3874.9s, sys 28.0s, output queue size 299
progress 75% @chr16:41000001, elapsed 137.1s, est remaining 45.7s, peak mem 4230MB, user 4127.8s, sys 29.7s, output queue size 461
progress 80% @chr18:10000001, elapsed 149.5s, est remaining 37.4s, peak mem 4329MB, user 4532.8s, sys 32.2s, output queue size 77
progress 85% @chr19:55000001, elapsed 160.9s, est remaining 28.4s, peak mem 4507MB, user 4909.1s, sys 34.3s, output queue size 36
progress 90% @chr21:41000001, elapsed 169.3s, est remaining 18.8s, peak mem 4507MB, user 5159.4s, sys 35.7s, output queue size 78
progress 95% @chrY:54000001, elapsed 176.2s, est remaining 9.3s, peak mem 4507MB, user 5380.0s, sys 36.9s, output queue size 211
progress 100% @chrX:154000001, elapsed 179.0s, est remaining 0.0s, peak mem 4507MB, user 5478.6s, sys 38.0s, output queue size 3453
library 1029_BCAN-T1-TDNA-1_A23MHWWLT4_1:
chimeric_paired 14854206
duped 282493491
duped_chimeric_paired 1245810
duped_paired 282489392
duped_unpaired 4099
optical_dup 5967898
paired 525059742
reads 539904165
secondary_supplementary 14834945
unmapped 9685
unpaired 4739
optical dup clusters 4978659, maxdup 52, total optical dup pairs 5967898
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: 33887840977
reads: 539909111
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 2617059 calls 2.072 user 0.211 sys 2.671 real
MateInfoByVcf::load: 2617059 calls 1594.125 user 9.858 sys 1497.858 real
MateInfoByVcf::parse_events: 2617059 calls 1553.536 user 8.744 sys 1475.309 real
advance: 3219322 calls 477.421 user 9.219 sys 570.181 real
calc: 3219322 calls 3209.008 user 15.931 sys 3265.493 real
done: 1 calls 0.046 user 0.009 sys 0.062 real
exec_no_coor: 1 calls 0.016 user 0.000 sys 0.018 real
execute: 1 calls 0.009 user 0.000 sys 179.195 real
fetch: 3219323 calls 138.404 user 0.642 sys 129.112 real
find_pairEnds: 2617059 calls 160.161 user 0.633 sys 164.244 real
idle: 2032 calls 0.580 user 0.018 sys 48.435 real
init: 1 calls 0.000 user 0.000 sys 0.006 real
markDup: 2617059 calls 690.246 user 3.129 sys 741.419 real
vcfadvance: 2617059 calls 1.808 user 0.508 sys 2.143 real
write: 3219323 calls 2504.234 user 11.646 sys 2505.805 real
overall: 4726595584 mem 5482.587 user 48.012 sys 180.231 real