cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1_25PercentHG514.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info 1_25PercentHG514.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:189000001, elapsed 13.5s, est remaining 255.9s, peak mem 5862MB, user 302.0s, sys 24.4s, output queue size 160
progress 10% @chr2:72000001, elapsed 23.5s, est remaining 211.8s, peak mem 7337MB, user 640.1s, sys 33.4s, output queue size 167
progress 15% @chr3:17000001, elapsed 34.2s, est remaining 193.9s, peak mem 14349MB, user 937.4s, sys 36.2s, output queue size 203
progress 20% @chr3:156000001, elapsed 44.8s, est remaining 179.3s, peak mem 21224MB, user 1198.2s, sys 38.5s, output queue size 364
progress 25% @chr4:103000001, elapsed 52.7s, est remaining 158.1s, peak mem 26680MB, user 1444.5s, sys 40.8s, output queue size 525
progress 30% @chr5:69000001, elapsed 59.2s, est remaining 138.1s, peak mem 28181MB, user 1633.8s, sys 42.2s, output queue size 687
progress 35% @chr6:88000001, elapsed 69.5s, est remaining 129.1s, peak mem 29603MB, user 1965.9s, sys 45.1s, output queue size 848
progress 40% @chr7:64000001, elapsed 78.3s, est remaining 117.4s, peak mem 29667MB, user 2226.8s, sys 47.2s, output queue size 1009
progress 45% @chr8:69000001, elapsed 88.9s, est remaining 108.7s, peak mem 30254MB, user 2562.4s, sys 50.5s, output queue size 1171
progress 50% @chr9:82000001, elapsed 96.4s, est remaining 96.4s, peak mem 31062MB, user 2776.1s, sys 52.6s, output queue size 1333
progress 55% @chr10:98000001, elapsed 108.6s, est remaining 88.9s, peak mem 31251MB, user 3110.3s, sys 54.9s, output queue size 1494
progress 60% @chr12:1000001, elapsed 122.2s, est remaining 81.5s, peak mem 31251MB, user 3560.1s, sys 71.0s, output queue size 585
progress 65% @chr12:49000001, elapsed 135.4s, est remaining 72.9s, peak mem 31251MB, user 3928.1s, sys 73.1s, output queue size 747
progress 70% @chr14:82000001, elapsed 146.9s, est remaining 62.9s, peak mem 31251MB, user 4343.1s, sys 76.2s, output queue size 908
progress 75% @chr16:42000001, elapsed 159.9s, est remaining 53.3s, peak mem 31251MB, user 4699.3s, sys 79.1s, output queue size 1070
progress 80% @chr18:3000001, elapsed 186.1s, est remaining 46.5s, peak mem 34191MB, user 5407.1s, sys 87.2s, output queue size 1232
progress 85% @chr19:48000001, elapsed 209.4s, est remaining 37.0s, peak mem 34744MB, user 6071.6s, sys 91.9s, output queue size 1394
progress 90% @chrX:22000001, elapsed 235.2s, est remaining 26.1s, peak mem 44648MB, user 6908.6s, sys 98.3s, output queue size 529
progress 95% @chrY:53000001, elapsed 245.2s, est remaining 12.9s, peak mem 44743MB, user 7156.2s, sys 100.8s, output queue size 690
progress 100% @chr19:7000001, elapsed 357.6s, est remaining 0.0s, peak mem 52857MB, user 8023.3s, sys 129.4s, output queue size 3822
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 384
algo: LocusCollector
license: sentieon:Dedup=31
input file size: 152172957232
reads: 4813824514
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 9.707 user 3.203 sys 13.546 real
VcfLineRecordHelper::sort: 272 calls 16.866 user 0.490 sys 17.410 real
advance: 3219322 calls 3444.418 user 97.375 sys 3545.470 real
calc: 3219322 calls 1865.966 user 16.890 sys 1882.656 real
done: 1 calls 9.707 user 3.203 sys 13.546 real
execute: 1 calls 0.001 user 0.003 sys 357.619 real
fetch: 3219322 calls 2363.122 user 11.847 sys 2376.587 real
idle: 3660 calls 1.725 user 0.009 sys 3359.894 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 55424667648 mem 8084.352 user 137.688 sys 372.963 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i 1_25PercentHG514.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info 1_25PercentHG514.md.score --metrics 1_25PercentHG514.md.metrics 1_25PercentHG514.md.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:188000001, elapsed 68.1s, est remaining 1293.3s, peak mem 7596MB, user 1565.8s, sys 27.0s, output queue size 160
progress 10% @chr2:68000001, elapsed 115.7s, est remaining 1041.3s, peak mem 9915MB, user 3287.1s, sys 41.3s, output queue size 74
progress 15% @chr3:18000001, elapsed 166.0s, est remaining 940.6s, peak mem 32107MB, user 4699.0s, sys 51.2s, output queue size 203
progress 20% @chr3:133000001, elapsed 223.2s, est remaining 893.0s, peak mem 37954MB, user 6132.5s, sys 62.2s, output queue size 364
progress 25% @chr4:103000001, elapsed 263.8s, est remaining 791.4s, peak mem 39528MB, user 7570.3s, sys 72.7s, output queue size 525
progress 30% @chr5:64000001, elapsed 297.1s, est remaining 693.3s, peak mem 40338MB, user 8478.7s, sys 78.9s, output queue size 687
progress 35% @chr6:91000001, elapsed 350.9s, est remaining 651.8s, peak mem 43571MB, user 10070.2s, sys 89.6s, output queue size 848
progress 40% @chr6:43000001, elapsed 397.7s, est remaining 596.5s, peak mem 43571MB, user 11509.2s, sys 99.3s, output queue size 1009
progress 45% @chr8:71000001, elapsed 454.2s, est remaining 555.1s, peak mem 43571MB, user 13164.4s, sys 114.3s, output queue size 1171
progress 50% @chr9:39000001, elapsed 495.0s, est remaining 495.0s, peak mem 43571MB, user 14311.1s, sys 122.8s, output queue size 1333
progress 55% @chr10:98000001, elapsed 559.6s, est remaining 457.9s, peak mem 44225MB, user 16003.1s, sys 133.7s, output queue size 1494
progress 60% @chr11:67000001, elapsed 634.5s, est remaining 423.0s, peak mem 46302MB, user 18176.3s, sys 146.6s, output queue size 1656
progress 65% @chr13:34000001, elapsed 704.0s, est remaining 379.1s, peak mem 46302MB, user 20098.4s, sys 157.1s, output queue size 1818
progress 70% @chr14:52000001, elapsed 766.7s, est remaining 328.6s, peak mem 46302MB, user 22791.1s, sys 204.9s, output queue size 908
progress 75% @chr16:42000001, elapsed 833.5s, est remaining 277.8s, peak mem 46302MB, user 24549.1s, sys 217.5s, output queue size 1070
progress 80% @chr17:7000001, elapsed 972.1s, est remaining 243.0s, peak mem 46302MB, user 28295.0s, sys 241.6s, output queue size 1232
progress 85% @chr19:42000001, elapsed 1099.8s, est remaining 194.1s, peak mem 54464MB, user 31834.8s, sys 261.9s, output queue size 1394
progress 90% @chrX:23000001, elapsed 1228.4s, est remaining 136.5s, peak mem 57873MB, user 36121.2s, sys 291.2s, output queue size 529
progress 95% @chrY:53000001, elapsed 1280.9s, est remaining 67.4s, peak mem 57873MB, user 37518.3s, sys 301.3s, output queue size 690
progress 100% @chr19:7000001, elapsed 1732.9s, est remaining 0.0s, peak mem 65932MB, user 41287.3s, sys 364.8s, output queue size 3822
library 1_25PercentHG514:
chimeric_paired 89311806
duped 3607854727
duped_chimeric_paired 37196808
duped_paired 3607799650
duped_unpaired 55077
paired 4786484514
reads 4813723256
secondary_supplementary 27124528
unmapped 158365
unpaired 57107
optical dup clusters 0, maxdup 0, total optical dup pairs 0
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 384
algo: Dedup
license: sentieon:Dedup=31
input file size: 152172957232
reads: 4813824514
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 2926042 calls 123.889 user 2.961 sys 134.223 real
MateInfoByVcf::load: 2926042 calls 2632.569 user 26.405 sys 2411.851 real
MateInfoByVcf::parse_events: 2926042 calls 2217.900 user 20.000 sys 2065.088 real
advance: 3219322 calls 3295.079 user 110.396 sys 3633.924 real
calc: 3219322 calls 31611.848 user 198.169 sys 31991.224 real
done: 1 calls 0.092 user 0.017 sys 0.110 real
exec_no_coor: 1 calls 0.845 user 0.311 sys 1.202 real
execute: 1 calls 0.003 user 0.008 sys 1741.922 real
fetch: 3219324 calls 2778.161 user 16.416 sys 2859.534 real
find_pairEnds: 2926042 calls 3476.252 user 8.051 sys 3598.371 real
idle: 1219886 calls 371.942 user 11.729 sys 11672.567 real
init: 1 calls 0.000 user 0.000 sys 0.007 real
markDup: 2926042 calls 12335.537 user 58.636 sys 12772.647 real
vcfadvance: 2926042 calls 46.105 user 6.695 sys 34.357 real
write: 3219324 calls 18994.342 user 137.713 sys 18893.618 real
overall: 69135310848 mem 41726.662 user 469.338 sys 1746.689 real