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% @chr1:156000001, elapsed 0.1s, est remaining 1.4s, peak mem 81MB, user 0.1s, sys 1.6s, output queue size 7
progress 10% @chr2:82000001, elapsed 0.1s, est remaining 1.2s, peak mem 81MB, user 0.2s, sys 3.4s, output queue size 6
progress 15% @chr2:228000001, elapsed 0.2s, est remaining 1.1s, peak mem 81MB, user 0.5s, sys 5.1s, output queue size 7
progress 20% @chr3:148000001, elapsed 0.3s, est remaining 1.0s, peak mem 81MB, user 0.6s, sys 6.9s, output queue size 5
progress 25% @chr4:107000001, elapsed 0.3s, est remaining 1.0s, peak mem 81MB, user 0.8s, sys 8.7s, output queue size 8
progress 30% @chr5:101000001, elapsed 0.4s, est remaining 0.9s, peak mem 81MB, user 0.9s, sys 10.5s, output queue size 4
progress 35% @chr6:82000001, elapsed 0.4s, est remaining 0.8s, peak mem 81MB, user 1.0s, sys 12.3s, output queue size 4
progress 40% @chr7:49000001, elapsed 0.5s, est remaining 0.8s, peak mem 81MB, user 1.2s, sys 14.1s, output queue size 6
progress 45% @chr8:53000001, elapsed 0.6s, est remaining 0.7s, peak mem 81MB, user 1.3s, sys 15.9s, output queue size 7
progress 50% @chr9:67000001, elapsed 0.6s, est remaining 0.6s, peak mem 81MB, user 1.4s, sys 17.7s, output queue size 6
progress 55% @chr10:107000001, elapsed 0.7s, est remaining 0.6s, peak mem 81MB, user 1.5s, sys 19.5s, output queue size 4
progress 60% @chr11:117000001, elapsed 0.8s, est remaining 0.5s, peak mem 81MB, user 1.7s, sys 21.2s, output queue size 8
progress 65% @chr13:11000001, elapsed 0.8s, est remaining 0.4s, peak mem 81MB, user 1.9s, sys 23.0s, output queue size 4
progress 70% @chr14:56000001, elapsed 0.9s, est remaining 0.4s, peak mem 81MB, user 2.0s, sys 24.7s, output queue size 6
progress 75% @chr16:6000001, elapsed 0.9s, est remaining 0.3s, peak mem 81MB, user 2.2s, sys 26.6s, output queue size 7
progress 80% @chr17:78000001, elapsed 1.0s, est remaining 0.3s, peak mem 81MB, user 2.3s, sys 28.4s, output queue size 6
progress 85% @chr20:16000001, elapsed 1.1s, est remaining 0.2s, peak mem 81MB, user 2.5s, sys 30.1s, output queue size 6
progress 90% @chrX:34000001, elapsed 1.2s, est remaining 0.1s, peak mem 129MB, user 2.9s, sys 31.8s, output queue size 114
progress 95% @chrY:39000001, elapsed 1.3s, est remaining 0.1s, peak mem 159MB, user 3.3s, sys 33.8s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.5s, est remaining 0.0s, peak mem 181MB, user 4.0s, sys 36.8s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000c06f2
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: INTEL(R) XEON(R) PLATINUM 8559C
threads: 31 max 192
algo: LocusCollector
license: sentieon:Dedup=31
input file size: 51298920
reads: 1001133
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.025 user 0.017 sys 0.051 real
VcfLineRecordHelper::sort: 31 calls 0.000 user 0.000 sys 0.000 real
advance: 3219322 calls 1.221 user 7.553 sys 8.873 real
calc: 3219322 calls 0.354 user 6.136 sys 6.357 real
done: 1 calls 0.025 user 0.017 sys 0.051 real
execute: 1 calls 0.003 user 0.002 sys 1.519 real
fetch: 3219322 calls 0.351 user 5.624 sys 6.347 real
idle: 75 calls 0.013 user 0.016 sys 36.312 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 234016768 mem 4.182 user 37.251 sys 2.588 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% @chr1:155000001, elapsed 0.1s, est remaining 2.3s, peak mem 178MB, user 0.2s, sys 2.8s, output queue size 6
progress 10% @chr2:67000001, elapsed 0.2s, est remaining 1.9s, peak mem 208MB, user 0.4s, sys 5.4s, output queue size 6
progress 15% @chr2:231000001, elapsed 0.3s, est remaining 1.7s, peak mem 233MB, user 0.6s, sys 8.0s, output queue size 4
progress 20% @chr3:150000001, elapsed 0.4s, est remaining 1.6s, peak mem 242MB, user 0.9s, sys 10.5s, output queue size 3
progress 25% @chr4:112000001, elapsed 0.5s, est remaining 1.4s, peak mem 247MB, user 1.1s, sys 13.0s, output queue size 3
progress 30% @chr5:104000001, elapsed 0.6s, est remaining 1.3s, peak mem 259MB, user 1.4s, sys 15.5s, output queue size 2
progress 35% @chr6:61000001, elapsed 0.7s, est remaining 1.2s, peak mem 263MB, user 1.6s, sys 18.1s, output queue size 4
progress 40% @chr7:52000001, elapsed 0.8s, est remaining 1.1s, peak mem 269MB, user 1.8s, sys 20.6s, output queue size 3
progress 45% @chr8:54000001, elapsed 0.8s, est remaining 1.0s, peak mem 274MB, user 2.1s, sys 23.1s, output queue size 3
progress 50% @chr9:69000001, elapsed 0.9s, est remaining 0.9s, peak mem 280MB, user 2.3s, sys 25.7s, output queue size 4
progress 55% @chr10:92000001, elapsed 1.0s, est remaining 0.8s, peak mem 283MB, user 2.5s, sys 28.3s, output queue size 4
progress 60% @chr11:116000001, elapsed 1.1s, est remaining 0.7s, peak mem 287MB, user 2.7s, sys 30.8s, output queue size 7
progress 65% @chr13:12000001, elapsed 1.2s, est remaining 0.6s, peak mem 289MB, user 2.9s, sys 33.3s, output queue size 8
progress 70% @chr14:54000001, elapsed 1.3s, est remaining 0.5s, peak mem 290MB, user 3.2s, sys 35.6s, output queue size 7
progress 75% @chr16:7000001, elapsed 1.4s, est remaining 0.5s, peak mem 293MB, user 3.4s, sys 38.1s, output queue size 6
progress 80% @chr17:79000001, elapsed 1.5s, est remaining 0.4s, peak mem 293MB, user 3.6s, sys 40.5s, output queue size 5
progress 85% @chr20:15000001, elapsed 1.5s, est remaining 0.3s, peak mem 295MB, user 3.7s, sys 43.0s, output queue size 7
progress 90% @chrX:41000001, elapsed 1.7s, est remaining 0.2s, peak mem 527MB, user 5.7s, sys 44.4s, output queue size 114
progress 95% @chrY:40000001, elapsed 1.8s, est remaining 0.1s, peak mem 550MB, user 7.1s, sys 45.6s, output queue size 276
progress 100% @chr21:41000001, elapsed 3.1s, est remaining 0.0s, peak mem 575MB, user 13.0s, sys 47.3s, 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: 000c06f2
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: INTEL(R) XEON(R) PLATINUM 8559C
threads: 31 max 192
algo: Dedup
license: sentieon:Dedup=31
input file size: 51298920
reads: 1001133
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 26026 calls 0.000 user 0.000 sys 0.021 real
MateInfoByVcf::load: 26026 calls 4.346 user 0.631 sys 4.154 real
MateInfoByVcf::parse_events: 26026 calls 4.313 user 0.578 sys 4.049 real
advance: 3219322 calls 1.244 user 5.766 sys 7.409 real
calc: 3219322 calls 4.253 user 17.371 sys 22.013 real
done: 1 calls 0.003 user 0.000 sys 0.003 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.005 user 0.002 sys 3.130 real
fetch: 3219322 calls 0.358 user 5.656 sys 6.167 real
find_pairEnds: 26026 calls 0.185 user 0.010 sys 0.348 real
idle: 1931 calls 0.116 user 0.132 sys 64.518 real
init: 1 calls 0.009 user 0.001 sys 0.006 real
markDup: 26026 calls 0.847 user 0.063 sys 1.307 real
vcfadvance: 26026 calls 0.019 user 0.111 sys 0.043 real
write: 3219322 calls 2.367 user 5.709 sys 8.194 real
overall: 603795456 mem 13.789 user 48.122 sys 4.165 real