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% @chr1:152000001, elapsed 0.2s, est remaining 4.0s, peak mem 78MB, user 0.3s, sys 5.5s, output queue size 9
progress 10% @chr2:52000001, elapsed 0.4s, est remaining 3.6s, peak mem 78MB, user 0.5s, sys 10.9s, output queue size 21
progress 15% @chr2:239000001, elapsed 0.6s, est remaining 3.3s, peak mem 78MB, user 0.6s, sys 16.5s, output queue size 8
progress 20% @chr3:155000001, elapsed 0.8s, est remaining 3.1s, peak mem 78MB, user 0.8s, sys 22.1s, output queue size 15
progress 25% @chr4:125000001, elapsed 0.9s, est remaining 2.8s, peak mem 78MB, user 1.0s, sys 27.2s, output queue size 10
progress 30% @chr5:95000001, elapsed 1.1s, est remaining 2.6s, peak mem 78MB, user 1.1s, sys 32.4s, output queue size 10
progress 35% @chr6:80000001, elapsed 1.3s, est remaining 2.4s, peak mem 78MB, user 1.3s, sys 37.3s, output queue size 19
progress 40% @chr7:39000001, elapsed 1.4s, est remaining 2.2s, peak mem 78MB, user 1.4s, sys 42.3s, output queue size 16
progress 45% @chr8:71000001, elapsed 1.6s, est remaining 2.0s, peak mem 78MB, user 1.6s, sys 47.4s, output queue size 13
progress 50% @chr9:82000001, elapsed 1.8s, est remaining 1.8s, peak mem 78MB, user 1.8s, sys 52.7s, output queue size 10
progress 55% @chr10:97000001, elapsed 2.0s, est remaining 1.6s, peak mem 78MB, user 2.0s, sys 58.2s, output queue size 21
progress 60% @chr11:133000001, elapsed 2.1s, est remaining 1.4s, peak mem 78MB, user 2.3s, sys 63.2s, output queue size 15
progress 65% @chr13:17000001, elapsed 2.3s, est remaining 1.2s, peak mem 78MB, user 2.5s, sys 68.4s, output queue size 10
progress 70% @chr14:74000001, elapsed 2.5s, est remaining 1.1s, peak mem 78MB, user 2.6s, sys 73.5s, output queue size 15
progress 75% @chr16:23000001, elapsed 2.7s, est remaining 0.9s, peak mem 78MB, user 2.8s, sys 78.5s, output queue size 14
progress 80% @chr18:11000001, elapsed 2.8s, est remaining 0.7s, peak mem 78MB, user 3.1s, sys 83.3s, output queue size 24
progress 85% @chr20:32000001, elapsed 3.0s, est remaining 0.5s, peak mem 78MB, user 3.2s, sys 88.4s, output queue size 22
progress 90% @chrX:36000001, elapsed 3.2s, est remaining 0.4s, peak mem 81MB, user 3.7s, sys 93.0s, output queue size 114
progress 95% @chrY:16000001, elapsed 3.4s, est remaining 0.2s, peak mem 105MB, user 4.1s, sys 97.6s, output queue size 276
progress 100% @chr21:41000001, elapsed 3.8s, est remaining 0.0s, peak mem 142MB, user 5.0s, sys 105.4s, 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: 51298917
reads: 1001133
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.027 user 0.018 sys 0.054 real
VcfLineRecordHelper::sort: 31 calls 0.000 user 0.000 sys 0.000 real
advance: 3219322 calls 1.273 user 25.352 sys 23.732 real
calc: 3219322 calls 0.383 user 20.235 sys 11.523 real
done: 1 calls 0.027 user 0.018 sys 0.054 real
execute: 1 calls 0.006 user 0.004 sys 3.832 real
fetch: 3219322 calls 0.427 user 19.917 sys 11.654 real
idle: 85 calls 0.012 user 0.052 sys 38.037 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 190095360 mem 5.139 user 106.075 sys 4.910 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% @chr1:159000001, elapsed 0.1s, est remaining 2.2s, peak mem 165MB, user 0.2s, sys 2.8s, output queue size 15
progress 10% @chr2:68000001, elapsed 0.3s, est remaining 2.5s, peak mem 174MB, user 0.6s, sys 7.1s, output queue size 15
progress 15% @chr3:19000001, elapsed 0.4s, est remaining 2.5s, peak mem 195MB, user 0.9s, sys 11.8s, output queue size 56
progress 20% @chr3:151000001, elapsed 0.6s, est remaining 2.5s, peak mem 207MB, user 1.2s, sys 17.0s, output queue size 25
progress 25% @chr4:106000001, elapsed 0.8s, est remaining 2.3s, peak mem 213MB, user 1.4s, sys 21.9s, output queue size 9
progress 30% @chr5:107000001, elapsed 0.9s, est remaining 2.2s, peak mem 222MB, user 1.6s, sys 26.7s, output queue size 18
progress 35% @chr6:85000001, elapsed 1.2s, est remaining 2.1s, peak mem 225MB, user 2.0s, sys 32.4s, output queue size 42
progress 40% @chr7:77000001, elapsed 1.4s, est remaining 2.1s, peak mem 225MB, user 2.4s, sys 40.0s, output queue size 32
progress 45% @chr8:74000001, elapsed 1.7s, est remaining 2.1s, peak mem 231MB, user 2.7s, sys 48.0s, output queue size 15
progress 50% @chr9:61000001, elapsed 1.9s, est remaining 1.9s, peak mem 231MB, user 2.9s, sys 56.0s, output queue size 12
progress 55% @chr10:97000001, elapsed 2.2s, est remaining 1.8s, peak mem 234MB, user 3.4s, sys 63.7s, output queue size 22
progress 60% @chr11:119000001, elapsed 2.5s, est remaining 1.6s, peak mem 234MB, user 3.6s, sys 71.7s, output queue size 22
progress 65% @chr13:14000001, elapsed 2.7s, est remaining 1.5s, peak mem 234MB, user 3.9s, sys 80.1s, output queue size 5
progress 70% @chr14:58000001, elapsed 3.0s, est remaining 1.3s, peak mem 234MB, user 4.2s, sys 88.7s, output queue size 5
progress 75% @chr16:14000001, elapsed 3.3s, est remaining 1.1s, peak mem 237MB, user 4.5s, sys 96.5s, output queue size 16
progress 80% @chr18:13000001, elapsed 3.6s, est remaining 0.9s, peak mem 237MB, user 4.8s, sys 104.1s, output queue size 16
progress 85% @chr20:28000001, elapsed 3.8s, est remaining 0.7s, peak mem 237MB, user 5.2s, sys 111.4s, output queue size 24
progress 90% @chrX:25000001, elapsed 4.2s, est remaining 0.5s, peak mem 459MB, user 8.6s, sys 116.6s, output queue size 114
progress 95% @chrY:37000001, elapsed 4.5s, est remaining 0.2s, peak mem 468MB, user 12.5s, sys 122.9s, output queue size 240
progress 100% @chr21:41000001, elapsed 5.4s, est remaining 0.0s, peak mem 480MB, user 15.2s, sys 129.7s, 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: 51298917
reads: 1001133
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 26026 calls 0.009 user 0.043 sys 0.077 real
MateInfoByVcf::load: 26026 calls 4.354 user 1.480 sys 4.745 real
MateInfoByVcf::parse_events: 26026 calls 4.281 user 1.291 sys 4.390 real
advance: 3219322 calls 1.383 user 17.785 sys 17.227 real
calc: 3219322 calls 4.846 user 47.662 sys 53.181 real
done: 1 calls 0.003 user 0.000 sys 0.004 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.004 user 0.003 sys 5.511 real
fetch: 3219322 calls 0.381 user 16.349 sys 13.916 real
find_pairEnds: 26026 calls 0.172 user 0.045 sys 0.418 real
idle: 966 calls 0.062 user 0.119 sys 51.200 real
init: 1 calls 0.009 user 0.001 sys 0.006 real
markDup: 26026 calls 0.972 user 0.268 sys 1.679 real
vcfadvance: 26026 calls 0.016 user 0.182 sys 0.205 real
write: 3219322 calls 2.456 user 14.126 sys 18.990 real
overall: 503382016 mem 15.875 user 130.546 sys 6.476 real