cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1029_I9B-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info 1029_I9B-T1-TDNA-1_A23MHWWLT4_1.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:151000001, elapsed 4.5s, est remaining 86.2s, peak mem 5921MB, user 97.2s, sys 4.4s, output queue size 150
progress 10% @chr1:205000001, elapsed 8.8s, est remaining 79.2s, peak mem 8005MB, user 233.0s, sys 8.3s, output queue size 117
progress 15% @chr2:98000001, elapsed 14.4s, est remaining 81.4s, peak mem 12020MB, user 372.6s, sys 25.3s, output queue size 203
progress 20% @chr3:174000001, elapsed 18.1s, est remaining 72.3s, peak mem 12879MB, user 479.3s, sys 29.8s, output queue size 364
progress 25% @chr4:129000001, elapsed 21.2s, est remaining 63.7s, peak mem 13110MB, user 584.5s, sys 35.4s, output queue size 444
progress 30% @chr5:44000001, elapsed 23.7s, est remaining 55.4s, peak mem 13490MB, user 658.7s, sys 37.9s, output queue size 464
progress 35% @chr6:56000001, elapsed 27.7s, est remaining 51.5s, peak mem 14086MB, user 765.6s, sys 39.5s, output queue size 625
progress 40% @chr6:156000001, elapsed 32.3s, est remaining 48.5s, peak mem 15680MB, user 884.6s, sys 41.1s, output queue size 786
progress 45% @chr8:74000001, elapsed 37.3s, est remaining 45.6s, peak mem 16224MB, user 1040.9s, sys 44.6s, output queue size 948
progress 50% @chr9:81000001, elapsed 40.9s, est remaining 40.9s, peak mem 16256MB, user 1133.7s, sys 45.8s, output queue size 1110
progress 55% @chr10:104000001, elapsed 45.1s, est remaining 36.9s, peak mem 16433MB, user 1288.7s, sys 47.5s, output queue size 485
progress 60% @chr11:134000001, elapsed 49.4s, est remaining 33.0s, peak mem 16433MB, user 1423.9s, sys 48.6s, output queue size 510
progress 65% @chr13:26000001, elapsed 53.9s, est remaining 29.0s, peak mem 16493MB, user 1541.1s, sys 49.5s, output queue size 672
progress 70% @chr14:86000001, elapsed 56.6s, est remaining 24.3s, peak mem 16493MB, user 1609.9s, sys 50.3s, output queue size 833
progress 75% @chr16:42000001, elapsed 61.5s, est remaining 20.5s, peak mem 16525MB, user 1776.3s, sys 51.8s, output queue size 797
progress 80% @chr18:25000001, elapsed 68.3s, est remaining 17.1s, peak mem 16676MB, user 1968.6s, sys 53.2s, output queue size 623
progress 85% @chr19:49000001, elapsed 74.5s, est remaining 13.2s, peak mem 16676MB, user 2160.5s, sys 54.3s, output queue size 785
progress 90% @chrX:34000001, elapsed 80.1s, est remaining 8.9s, peak mem 17847MB, user 2331.4s, sys 55.8s, output queue size 947
progress 95% @chrY:51000001, elapsed 83.6s, est remaining 4.4s, peak mem 17847MB, user 2431.5s, sys 57.0s, output queue size 1109
progress 100% @chr15:88000001, elapsed 103.3s, est remaining 0.0s, peak mem 17847MB, user 2618.7s, sys 58.3s, 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: 79278197038
reads: 1554117329
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 2.276 user 0.413 sys 3.567 real
VcfLineRecordHelper::sort: 96 calls 4.134 user 0.230 sys 4.371 real
advance: 3219322 calls 1348.078 user 48.909 sys 1400.168 real
calc: 3219322 calls 529.498 user 4.427 sys 533.888 real
done: 1 calls 2.276 user 0.413 sys 3.567 real
execute: 1 calls 0.000 user 0.010 sys 103.346 real
fetch: 3219322 calls 632.157 user 3.039 sys 634.957 real
idle: 684 calls 0.178 user 0.004 sys 663.425 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 18714144768 mem 2631.294 user 59.483 sys 108.205 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1029_I9B-T1-TDNA-1_A23MHWWLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info 1029_I9B-T1-TDNA-1_A23MHWWLT4_1.md.score --metrics 1029_I9B-T1-TDNA-1_A23MHWWLT4_1.md.metrics 1029_I9B-T1-TDNA-1_A23MHWWLT4_1.md.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:177000001, elapsed 31.6s, est remaining 600.3s, peak mem 7402MB, user 799.3s, sys 10.0s, output queue size 44
progress 10% @chr2:80000001, elapsed 57.2s, est remaining 514.4s, peak mem 11582MB, user 1588.3s, sys 14.7s, output queue size 117
progress 15% @chr2:237000001, elapsed 91.7s, est remaining 519.7s, peak mem 14102MB, user 2581.2s, sys 20.2s, output queue size 203
progress 20% @chr3:173000001, elapsed 118.9s, est remaining 475.7s, peak mem 14394MB, user 3405.6s, sys 25.6s, output queue size 283
progress 25% @chr4:136000001, elapsed 140.6s, est remaining 421.9s, peak mem 14784MB, user 4151.5s, sys 28.8s, output queue size 302
progress 30% @chr5:99000001, elapsed 158.7s, est remaining 370.2s, peak mem 14856MB, user 4714.1s, sys 31.2s, output queue size 464
progress 35% @chr6:72000001, elapsed 186.5s, est remaining 346.3s, peak mem 16067MB, user 5474.8s, sys 34.6s, output queue size 625
progress 40% @chr7:41000001, elapsed 220.7s, est remaining 331.1s, peak mem 17372MB, user 6297.6s, sys 38.6s, output queue size 786
progress 45% @chr8:72000001, elapsed 253.9s, est remaining 310.4s, peak mem 17540MB, user 7475.8s, sys 43.3s, output queue size 357
progress 50% @chr9:89000001, elapsed 278.9s, est remaining 278.9s, peak mem 17756MB, user 8206.9s, sys 47.4s, output queue size 366
progress 55% @chr10:104000001, elapsed 310.5s, est remaining 254.1s, peak mem 17857MB, user 9220.3s, sys 52.1s, output queue size 348
progress 60% @chr12:3000001, elapsed 342.0s, est remaining 228.0s, peak mem 17860MB, user 10182.5s, sys 56.3s, output queue size 510
progress 65% @chr13:33000001, elapsed 373.0s, est remaining 200.8s, peak mem 17860MB, user 11032.9s, sys 60.1s, output queue size 672
progress 70% @chr14:72000001, elapsed 393.4s, est remaining 168.6s, peak mem 17891MB, user 11747.2s, sys 62.4s, output queue size 635
progress 75% @chr16:42000001, elapsed 426.2s, est remaining 142.1s, peak mem 17901MB, user 12720.0s, sys 65.8s, output queue size 461
progress 80% @chr18:11000001, elapsed 473.7s, est remaining 118.4s, peak mem 18217MB, user 14070.0s, sys 70.7s, output queue size 623
progress 85% @chr20:29000001, elapsed 516.6s, est remaining 91.2s, peak mem 18276MB, user 15331.7s, sys 75.3s, output queue size 785
progress 90% @chrX:31000001, elapsed 553.9s, est remaining 61.5s, peak mem 19760MB, user 16630.1s, sys 79.9s, output queue size 513
progress 95% @chrY:54000001, elapsed 578.8s, est remaining 30.5s, peak mem 19922MB, user 17320.1s, sys 83.0s, output queue size 675
progress 100% @chrX:67000001, elapsed 643.8s, est remaining 0.0s, peak mem 19923MB, user 18205.0s, sys 85.9s, output queue size 3540
library 1029_I9B-T1-TDNA-1_A23MHWWLT4_1:
chimeric_paired 24370188
duped 976390624
duped_chimeric_paired 6346010
duped_paired 976384083
duped_unpaired 6541
optical_dup 163848713
paired 1544421284
reads 1554110057
secondary_supplementary 9673759
unmapped 14779
unpaired 7507
optical dup clusters 77103186, maxdup 78, total optical dup pairs 163848713
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: 79278197038
reads: 1554117329
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 2691715 calls 19.710 user 0.278 sys 20.070 real
MateInfoByVcf::load: 2691715 calls 2473.132 user 11.589 sys 2403.995 real
MateInfoByVcf::parse_events: 2691715 calls 2351.469 user 10.033 sys 2326.218 real
advance: 3219322 calls 1282.823 user 26.112 sys 1381.381 real
calc: 3219322 calls 13432.706 user 42.443 sys 13576.965 real
done: 1 calls 0.049 user 0.020 sys 0.071 real
exec_no_coor: 1 calls 0.000 user 0.020 sys 0.038 real
execute: 1 calls 0.002 user 0.001 sys 644.368 real
fetch: 3219323 calls 741.407 user 1.861 sys 723.251 real
find_pairEnds: 2691715 calls 885.864 user 1.058 sys 911.351 real
idle: 93663 calls 46.289 user 0.834 sys 1557.385 real
init: 1 calls 0.010 user 0.000 sys 0.006 real
markDup: 2691715 calls 3330.996 user 8.072 sys 3437.162 real
vcfadvance: 2691715 calls 9.319 user 1.186 sys 10.109 real
write: 3219323 calls 10026.461 user 33.160 sys 10058.597 real
overall: 20891402240 mem 18263.157 user 111.358 sys 645.313 real