cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1136_3MV-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info 1136_3MV-T1-TDNA-1_A23MHWWLT4_1.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:187000001, elapsed 3.5s, est remaining 67.0s, peak mem 4610MB, user 73.7s, sys 5.5s, output queue size 146
progress 10% @chr2:46000001, elapsed 6.8s, est remaining 60.8s, peak mem 6892MB, user 162.5s, sys 8.7s, output queue size 172
progress 15% @chr3:17000001, elapsed 9.7s, est remaining 55.2s, peak mem 9251MB, user 258.0s, sys 14.4s, output queue size 206
progress 20% @chr3:165000001, elapsed 12.2s, est remaining 48.9s, peak mem 10098MB, user 329.4s, sys 17.0s, output queue size 364
progress 25% @chr4:133000001, elapsed 14.7s, est remaining 44.0s, peak mem 10179MB, user 398.0s, sys 18.7s, output queue size 525
progress 30% @chr5:79000001, elapsed 16.4s, est remaining 38.3s, peak mem 10416MB, user 455.9s, sys 21.6s, output queue size 464
progress 35% @chr6:91000001, elapsed 19.3s, est remaining 35.8s, peak mem 11024MB, user 535.6s, sys 22.9s, output queue size 625
progress 40% @chr7:41000001, elapsed 23.1s, est remaining 34.6s, peak mem 12377MB, user 623.4s, sys 25.0s, output queue size 786
progress 45% @chr8:79000001, elapsed 26.9s, est remaining 32.8s, peak mem 12535MB, user 762.2s, sys 28.0s, output queue size 356
progress 50% @chr9:87000001, elapsed 29.6s, est remaining 29.6s, peak mem 12535MB, user 839.9s, sys 28.9s, output queue size 366
progress 55% @chr10:103000001, elapsed 32.7s, est remaining 26.7s, peak mem 12839MB, user 923.5s, sys 30.1s, output queue size 527
progress 60% @chr12:2000001, elapsed 36.6s, est remaining 24.4s, peak mem 15049MB, user 1040.4s, sys 31.4s, output queue size 510
progress 65% @chr13:36000001, elapsed 39.9s, est remaining 21.5s, peak mem 17050MB, user 1120.1s, sys 32.1s, output queue size 672
progress 70% @chr14:85000001, elapsed 41.9s, est remaining 18.0s, peak mem 18477MB, user 1171.1s, sys 32.6s, output queue size 833
progress 75% @chr16:42000001, elapsed 45.9s, est remaining 15.3s, peak mem 19671MB, user 1309.9s, sys 33.9s, output queue size 995
progress 80% @chr18:29000001, elapsed 51.8s, est remaining 13.0s, peak mem 22667MB, user 1467.6s, sys 35.5s, output queue size 1062
progress 85% @chr19:49000001, elapsed 57.3s, est remaining 10.1s, peak mem 23730MB, user 1624.3s, sys 37.1s, output queue size 1224
progress 90% @chrX:20000001, elapsed 61.4s, est remaining 6.8s, peak mem 24171MB, user 1744.0s, sys 38.2s, output queue size 1386
progress 95% @chrY:50000001, elapsed 64.6s, est remaining 3.4s, peak mem 25162MB, user 1827.6s, sys 39.1s, output queue size 1548
progress 100% @chr8:127000001, elapsed 123.3s, est remaining 0.0s, peak mem 25179MB, user 2089.9s, sys 48.4s, output queue size 4972
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: 64827209244
reads: 1256320583
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 1.942 user 0.548 sys 3.870 real
VcfLineRecordHelper::sort: 93 calls 3.690 user 0.260 sys 3.922 real
advance: 3219322 calls 1084.898 user 37.733 sys 1126.092 real
calc: 3219322 calls 416.450 user 4.634 sys 421.777 real
done: 1 calls 1.942 user 0.548 sys 3.870 real
execute: 1 calls 0.002 user 0.003 sys 123.428 real
fetch: 3219322 calls 501.714 user 3.913 sys 505.288 real
idle: 1909 calls 0.651 user 0.005 sys 1821.448 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 26402242560 mem 2107.341 user 49.795 sys 128.329 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1136_3MV-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info 1136_3MV-T1-TDNA-1_A23MHWWLT4_1.md.score --metrics 1136_3MV-T1-TDNA-1_A23MHWWLT4_1.md.metrics 1136_3MV-T1-TDNA-1_A23MHWWLT4_1.md.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:169000001, elapsed 25.4s, est remaining 482.9s, peak mem 6030MB, user 611.7s, sys 6.8s, output queue size 115
progress 10% @chr2:80000001, elapsed 45.5s, est remaining 409.2s, peak mem 9591MB, user 1284.4s, sys 11.2s, output queue size 117
progress 15% @chr2:197000001, elapsed 66.1s, est remaining 374.6s, peak mem 11125MB, user 1897.5s, sys 14.9s, output queue size 203
progress 20% @chr3:155000001, elapsed 85.8s, est remaining 343.3s, peak mem 11125MB, user 2518.4s, sys 19.3s, output queue size 141
progress 25% @chr4:124000001, elapsed 102.3s, est remaining 306.9s, peak mem 11125MB, user 3012.1s, sys 21.6s, output queue size 302
progress 30% @chr5:101000001, elapsed 115.9s, est remaining 270.4s, peak mem 11191MB, user 3448.2s, sys 24.0s, output queue size 464
progress 35% @chr6:81000001, elapsed 136.6s, est remaining 253.8s, peak mem 11593MB, user 3985.2s, sys 26.4s, output queue size 625
progress 40% @chr7:64000001, elapsed 163.9s, est remaining 245.9s, peak mem 12435MB, user 4749.8s, sys 29.9s, output queue size 195
progress 45% @chr8:74000001, elapsed 190.2s, est remaining 232.5s, peak mem 12607MB, user 5546.7s, sys 33.6s, output queue size 356
progress 50% @chr8:143000001, elapsed 210.4s, est remaining 210.4s, peak mem 16671MB, user 6161.9s, sys 36.2s, output queue size 366
progress 55% @chr10:62000001, elapsed 234.5s, est remaining 191.9s, peak mem 21284MB, user 6842.4s, sys 39.2s, output queue size 527
progress 60% @chr12:1000001, elapsed 263.9s, est remaining 175.9s, peak mem 22816MB, user 7759.2s, sys 43.1s, output queue size 510
progress 65% @chr13:24000001, elapsed 288.1s, est remaining 155.1s, peak mem 24863MB, user 8424.1s, sys 45.7s, output queue size 672
progress 70% @chr14:20000001, elapsed 302.4s, est remaining 129.6s, peak mem 25137MB, user 8896.4s, sys 48.0s, output queue size 833
progress 75% @chr16:42000001, elapsed 329.9s, est remaining 110.0s, peak mem 25761MB, user 9742.8s, sys 51.2s, output queue size 900
progress 80% @chr18:10000001, elapsed 374.5s, est remaining 93.6s, peak mem 27601MB, user 10850.6s, sys 55.4s, output queue size 1062
progress 85% @chr19:52000001, elapsed 411.7s, est remaining 72.6s, peak mem 27601MB, user 12029.6s, sys 59.9s, output queue size 1224
progress 90% @chrX:20000001, elapsed 441.4s, est remaining 49.0s, peak mem 27809MB, user 13004.7s, sys 63.3s, output queue size 1386
progress 95% @chrY:54000001, elapsed 465.3s, est remaining 24.5s, peak mem 27809MB, user 13535.5s, sys 65.6s, output queue size 1548
progress 100% @chr8:127000001, elapsed 710.8s, est remaining 0.0s, peak mem 28061MB, user 14930.1s, sys 84.6s, output queue size 4972
library 1136_3MV-T1-TDNA-1_A23MHWWLT4_1:
chimeric_paired 19699970
duped 727192321
duped_chimeric_paired 3807596
duped_paired 727186837
duped_unpaired 5484
optical_dup 146894319
paired 1247642970
reads 1256312353
secondary_supplementary 8656583
unmapped 14630
unpaired 6400
optical dup clusters 72073158, maxdup 93, total optical dup pairs 146894319
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: 64827209244
reads: 1256320583
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 2632600 calls 16.779 user 0.392 sys 17.093 real
MateInfoByVcf::load: 2632600 calls 2260.463 user 10.542 sys 2206.891 real
MateInfoByVcf::parse_events: 2632600 calls 2156.032 user 8.929 sys 2141.484 real
advance: 3219322 calls 1046.591 user 24.863 sys 1125.257 real
calc: 3219322 calls 10825.859 user 41.146 sys 10946.997 real
done: 1 calls 0.049 user 0.007 sys 0.064 real
exec_no_coor: 1 calls 0.012 user 0.025 sys 0.038 real
execute: 1 calls 0.000 user 0.001 sys 716.693 real
fetch: 3219323 calls 573.762 user 3.501 sys 558.999 real
find_pairEnds: 2632600 calls 717.496 user 1.125 sys 735.322 real
idle: 185766 calls 77.057 user 1.696 sys 7086.345 real
init: 1 calls 0.000 user 0.010 sys 0.006 real
markDup: 2632600 calls 2670.740 user 11.431 sys 2751.750 real
vcfadvance: 2632600 calls 8.926 user 1.280 sys 10.106 real
write: 3219323 calls 8099.191 user 28.430 sys 8135.314 real
overall: 29424631808 mem 15024.144 user 106.491 sys 718.488 real