cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i Sig_18_Blood.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info Sig_18_Blood.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:154000001, elapsed 0.1s, est remaining 2.4s, peak mem 81MB, user 0.2s, sys 2.9s, output queue size 25
progress 10% @chr2:95000001, elapsed 0.2s, est remaining 2.1s, peak mem 81MB, user 0.5s, sys 6.2s, output queue size 16
progress 15% @chr2:228000001, elapsed 0.3s, est remaining 1.9s, peak mem 81MB, user 0.7s, sys 9.4s, output queue size 36
progress 20% @chr3:181000001, elapsed 0.5s, est remaining 1.8s, peak mem 81MB, user 0.8s, sys 12.6s, output queue size 8
progress 25% @chr4:109000001, elapsed 0.6s, est remaining 1.7s, peak mem 81MB, user 1.1s, sys 15.7s, output queue size 22
progress 30% @chr5:80000001, elapsed 0.7s, est remaining 1.6s, peak mem 81MB, user 1.3s, sys 18.9s, output queue size 9
progress 35% @chr6:92000001, elapsed 0.8s, est remaining 1.5s, peak mem 81MB, user 1.5s, sys 22.1s, output queue size 26
progress 40% @chr7:48000001, elapsed 0.9s, est remaining 1.4s, peak mem 81MB, user 1.8s, sys 25.3s, output queue size 21
progress 45% @chr8:47000001, elapsed 1.0s, est remaining 1.2s, peak mem 81MB, user 2.0s, sys 28.7s, output queue size 12
progress 50% @chr9:62000001, elapsed 1.1s, est remaining 1.1s, peak mem 81MB, user 2.3s, sys 31.8s, output queue size 23
progress 55% @chr10:116000001, elapsed 1.2s, est remaining 1.0s, peak mem 81MB, user 2.6s, sys 34.9s, output queue size 24
progress 60% @chr12:11000001, elapsed 1.3s, est remaining 0.9s, peak mem 81MB, user 2.8s, sys 38.1s, output queue size 13
progress 65% @chr13:10000001, elapsed 1.5s, est remaining 0.8s, peak mem 81MB, user 3.0s, sys 41.3s, output queue size 24
progress 70% @chr14:86000001, elapsed 1.6s, est remaining 0.7s, peak mem 81MB, user 3.2s, sys 44.6s, output queue size 12
progress 75% @chr16:9000001, elapsed 1.7s, est remaining 0.6s, peak mem 81MB, user 3.4s, sys 47.9s, output queue size 23
progress 80% @chr18:27000001, elapsed 1.8s, est remaining 0.4s, peak mem 81MB, user 3.5s, sys 51.2s, output queue size 15
progress 85% @chr20:46000001, elapsed 1.9s, est remaining 0.3s, peak mem 81MB, user 3.8s, sys 54.5s, output queue size 21
progress 90% @chrX:31000001, elapsed 2.0s, est remaining 0.2s, peak mem 114MB, user 4.4s, sys 57.0s, output queue size 114
progress 95% @chrY:22000001, elapsed 2.2s, est remaining 0.1s, peak mem 144MB, user 4.7s, sys 60.5s, output queue size 271
progress 100% @chr21:41000001, elapsed 2.5s, est remaining 0.0s, peak mem 174MB, user 5.5s, sys 65.6s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 31 max 384
algo: LocusCollector
license: sentieon:Dedup=31
input file size: 51298918
reads: 1001133
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.021 user 0.019 sys 0.047 real
VcfLineRecordHelper::sort: 31 calls 0.000 user 0.000 sys 0.000 real
advance: 3219322 calls 1.356 user 12.728 sys 13.994 real
calc: 3219322 calls 0.317 user 10.584 sys 10.738 real
done: 1 calls 0.021 user 0.019 sys 0.047 real
execute: 1 calls 0.000 user 0.010 sys 2.465 real
fetch: 3219322 calls 0.259 user 10.942 sys 10.787 real
idle: 80 calls 0.007 user 0.018 sys 35.500 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 220250112 mem 5.602 user 66.113 sys 3.522 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i Sig_18_Blood.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info Sig_18_Blood.md.score --metrics Sig_18_Blood.md.metrics Sig_18_Blood.md.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:167000001, elapsed 0.2s, est remaining 3.1s, peak mem 153MB, user 0.5s, sys 3.9s, output queue size 10
progress 10% @chr2:77000001, elapsed 0.3s, est remaining 2.6s, peak mem 180MB, user 0.9s, sys 7.4s, output queue size 8
progress 15% @chr2:240000001, elapsed 0.4s, est remaining 2.3s, peak mem 210MB, user 1.3s, sys 10.9s, output queue size 9
progress 20% @chr3:163000001, elapsed 0.5s, est remaining 2.1s, peak mem 225MB, user 1.7s, sys 14.2s, output queue size 18
progress 25% @chr4:90000001, elapsed 0.7s, est remaining 2.0s, peak mem 228MB, user 2.1s, sys 17.7s, output queue size 25
progress 30% @chr5:92000001, elapsed 0.8s, est remaining 1.8s, peak mem 240MB, user 2.5s, sys 21.1s, output queue size 20
progress 35% @chr6:72000001, elapsed 0.9s, est remaining 1.7s, peak mem 243MB, user 2.9s, sys 24.5s, output queue size 15
progress 40% @chr7:78000001, elapsed 1.1s, est remaining 1.6s, peak mem 246MB, user 3.2s, sys 28.8s, output queue size 69
progress 45% @chr8:79000001, elapsed 1.3s, est remaining 1.6s, peak mem 246MB, user 3.5s, sys 34.9s, output queue size 51
progress 50% @chr9:95000001, elapsed 1.5s, est remaining 1.5s, peak mem 246MB, user 3.8s, sys 41.1s, output queue size 53
progress 55% @chr10:103000001, elapsed 1.7s, est remaining 1.4s, peak mem 252MB, user 4.2s, sys 47.1s, output queue size 49
progress 60% @chr12:6000001, elapsed 1.9s, est remaining 1.3s, peak mem 261MB, user 4.5s, sys 53.2s, output queue size 33
progress 65% @chr13:29000001, elapsed 2.1s, est remaining 1.1s, peak mem 261MB, user 4.8s, sys 59.4s, output queue size 32
progress 70% @chr14:76000001, elapsed 2.3s, est remaining 1.0s, peak mem 261MB, user 5.3s, sys 65.8s, output queue size 30
progress 75% @chr15:83000001, elapsed 2.5s, est remaining 0.8s, peak mem 261MB, user 5.5s, sys 71.7s, output queue size 34
progress 80% @chr18:17000001, elapsed 2.7s, est remaining 0.7s, peak mem 261MB, user 5.8s, sys 78.0s, output queue size 36
progress 85% @chr20:37000001, elapsed 2.9s, est remaining 0.5s, peak mem 264MB, user 6.1s, sys 83.9s, output queue size 31
progress 90% @chrX:39000001, elapsed 3.4s, est remaining 0.4s, peak mem 480MB, user 10.0s, sys 89.9s, output queue size 109
progress 95% @chrY:38000001, elapsed 3.6s, est remaining 0.2s, peak mem 495MB, user 12.7s, sys 95.8s, output queue size 247
progress 100% @chr21:41000001, elapsed 4.6s, est remaining 0.0s, peak mem 510MB, user 16.0s, sys 102.2s, output queue size 3664
library Sig_18_Blood:
chimeric_paired 1027
duped 115575
duped_chimeric_paired 2
duped_paired 115574
duped_unpaired 1
optical_dup 5956
paired 999968
reads 1001133
secondary_supplementary 1151
unmapped 7
unpaired 7
optical dup clusters 5759, maxdup 3, total optical dup pairs 5956
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 31 max 384
algo: Dedup
license: sentieon:Dedup=31
input file size: 51298918
reads: 1001133
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 26026 calls 0.000 user 0.016 sys 0.083 real
MateInfoByVcf::load: 26026 calls 4.280 user 1.879 sys 4.832 real
MateInfoByVcf::parse_events: 26026 calls 4.232 user 1.745 sys 4.423 real
advance: 3219322 calls 1.330 user 15.031 sys 12.627 real
calc: 3219322 calls 5.126 user 37.090 sys 43.098 real
done: 1 calls 0.000 user 0.000 sys 0.004 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.000 user 0.003 sys 4.692 real
fetch: 3219322 calls 0.406 user 14.681 sys 7.519 real
find_pairEnds: 26026 calls 0.127 user 0.065 sys 0.431 real
idle: 1400 calls 0.045 user 0.149 sys 54.566 real
init: 1 calls 0.010 user 0.000 sys 0.006 real
markDup: 26026 calls 0.908 user 0.336 sys 1.781 real
vcfadvance: 26026 calls 0.019 user 0.140 sys 0.129 real
write: 3219322 calls 2.672 user 7.842 sys 16.749 real
overall: 534929408 mem 16.693 user 103.213 sys 5.701 real