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% @chr1:161000001, elapsed 0.2s, est remaining 3.1s, peak mem 81MB, user 0.1s, sys 4.2s, output queue size 1
progress 10% @chr2:75000001, elapsed 0.3s, est remaining 2.8s, peak mem 81MB, user 0.2s, sys 8.6s, output queue size 2
progress 15% @chr2:230000001, elapsed 0.5s, est remaining 2.6s, peak mem 81MB, user 0.4s, sys 13.1s, output queue size 5
progress 20% @chr3:151000001, elapsed 0.6s, est remaining 2.4s, peak mem 81MB, user 0.5s, sys 17.5s, output queue size 2
progress 25% @chr4:115000001, elapsed 0.8s, est remaining 2.3s, peak mem 81MB, user 0.6s, sys 21.9s, output queue size 1
progress 30% @chr5:87000001, elapsed 0.9s, est remaining 2.1s, peak mem 81MB, user 0.7s, sys 26.4s, output queue size 1
progress 35% @chr6:60000001, elapsed 1.0s, est remaining 1.9s, peak mem 81MB, user 0.9s, sys 30.6s, output queue size 5
progress 40% @chr7:57000001, elapsed 1.2s, est remaining 1.8s, peak mem 81MB, user 1.0s, sys 34.9s, output queue size 1
progress 45% @chr8:59000001, elapsed 1.3s, est remaining 1.6s, peak mem 81MB, user 1.1s, sys 39.1s, output queue size 1
progress 50% @chr9:70000001, elapsed 1.5s, est remaining 1.5s, peak mem 81MB, user 1.3s, sys 43.4s, output queue size 3
progress 55% @chr10:94000001, elapsed 1.6s, est remaining 1.3s, peak mem 81MB, user 1.4s, sys 47.6s, output queue size 1
progress 60% @chr11:121000001, elapsed 1.7s, est remaining 1.2s, peak mem 81MB, user 1.6s, sys 51.9s, output queue size 3
progress 65% @chr13:12000001, elapsed 1.9s, est remaining 1.0s, peak mem 81MB, user 1.6s, sys 56.2s, output queue size 3
progress 70% @chr14:64000001, elapsed 2.0s, est remaining 0.9s, peak mem 81MB, user 1.8s, sys 60.3s, output queue size 5
progress 75% @chr16:13000001, elapsed 2.2s, est remaining 0.7s, peak mem 81MB, user 1.9s, sys 64.3s, output queue size 3
progress 80% @chr18:1, elapsed 2.3s, est remaining 0.6s, peak mem 81MB, user 2.0s, sys 68.3s, output queue size 2
progress 85% @chr20:19000001, elapsed 2.4s, est remaining 0.4s, peak mem 81MB, user 2.2s, sys 72.4s, output queue size 3
progress 90% @chrX:28000001, elapsed 2.6s, est remaining 0.3s, peak mem 120MB, user 2.7s, sys 75.7s, output queue size 114
progress 95% @chrY:30000001, elapsed 2.7s, est remaining 0.1s, peak mem 150MB, user 2.9s, sys 79.3s, output queue size 276
progress 100% @chr21:41000001, elapsed 3.0s, est remaining 0.0s, peak mem 175MB, user 3.7s, sys 84.4s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
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: 51300492
reads: 1001133
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.029 user 0.004 sys 0.046 real
VcfLineRecordHelper::sort: 31 calls 0.000 user 0.000 sys 0.000 real
advance: 3219322 calls 1.414 user 16.098 sys 18.103 real
calc: 3219322 calls 0.398 user 13.277 sys 14.436 real
done: 1 calls 0.029 user 0.004 sys 0.046 real
execute: 1 calls 0.001 user 0.000 sys 3.023 real
fetch: 3219322 calls 0.275 user 13.523 sys 14.389 real
idle: 74 calls 0.007 user 0.030 sys 35.832 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 229568512 mem 3.851 user 85.031 sys 4.084 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% @chr1:162000001, elapsed 0.1s, est remaining 2.0s, peak mem 187MB, user 0.3s, sys 2.4s, output queue size 8
progress 10% @chr2:75000001, elapsed 0.2s, est remaining 1.7s, peak mem 211MB, user 0.6s, sys 4.7s, output queue size 9
progress 15% @chr2:233000001, elapsed 0.3s, est remaining 1.5s, peak mem 231MB, user 0.8s, sys 7.0s, output queue size 14
progress 20% @chr3:155000001, elapsed 0.3s, est remaining 1.4s, peak mem 243MB, user 1.0s, sys 9.2s, output queue size 17
progress 25% @chr4:118000001, elapsed 0.4s, est remaining 1.3s, peak mem 253MB, user 1.2s, sys 11.3s, output queue size 15
progress 30% @chr5:88000001, elapsed 0.5s, est remaining 1.2s, peak mem 259MB, user 1.4s, sys 13.6s, output queue size 18
progress 35% @chr6:67000001, elapsed 0.6s, est remaining 1.1s, peak mem 268MB, user 1.6s, sys 15.8s, output queue size 18
progress 40% @chr7:55000001, elapsed 0.7s, est remaining 1.0s, peak mem 270MB, user 1.8s, sys 17.9s, output queue size 19
progress 45% @chr8:58000001, elapsed 0.7s, est remaining 0.9s, peak mem 276MB, user 1.9s, sys 20.1s, output queue size 22
progress 50% @chr9:73000001, elapsed 0.8s, est remaining 0.8s, peak mem 286MB, user 2.2s, sys 22.3s, output queue size 13
progress 55% @chr10:95000001, elapsed 0.9s, est remaining 0.7s, peak mem 292MB, user 2.4s, sys 24.5s, output queue size 10
progress 60% @chr11:123000001, elapsed 1.0s, est remaining 0.6s, peak mem 298MB, user 2.6s, sys 26.7s, output queue size 15
progress 65% @chr13:17000001, elapsed 1.0s, est remaining 0.6s, peak mem 298MB, user 2.8s, sys 29.0s, output queue size 18
progress 70% @chr14:60000001, elapsed 1.1s, est remaining 0.5s, peak mem 301MB, user 3.0s, sys 31.3s, output queue size 2
progress 75% @chr15:93000001, elapsed 1.2s, est remaining 0.4s, peak mem 304MB, user 3.2s, sys 33.7s, output queue size 22
progress 80% @chr18:2000001, elapsed 1.3s, est remaining 0.3s, peak mem 307MB, user 3.4s, sys 36.2s, output queue size 14
progress 85% @chr20:25000001, elapsed 1.4s, est remaining 0.2s, peak mem 309MB, user 3.7s, sys 38.6s, output queue size 18
progress 90% @chrX:35000001, elapsed 1.6s, est remaining 0.2s, peak mem 532MB, user 5.7s, sys 40.0s, output queue size 114
progress 95% @chrY:36000001, elapsed 1.7s, est remaining 0.1s, peak mem 555MB, user 7.7s, sys 41.3s, output queue size 271
progress 100% @chr21:41000001, elapsed 2.8s, est remaining 0.0s, peak mem 574MB, user 12.7s, sys 43.2s, 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 6.12.83
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: 51300492
reads: 1001133
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 26026 calls 0.001 user 0.000 sys 0.023 real
MateInfoByVcf::load: 26026 calls 4.310 user 0.684 sys 3.963 real
MateInfoByVcf::parse_events: 26026 calls 4.288 user 0.638 sys 3.854 real
advance: 3219322 calls 1.063 user 5.153 sys 6.933 real
calc: 3219322 calls 4.275 user 15.508 sys 20.449 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 0.003 user 0.004 sys 2.883 real
fetch: 3219322 calls 0.351 user 5.001 sys 5.957 real
find_pairEnds: 26026 calls 0.261 user 0.002 sys 0.338 real
idle: 1857 calls 0.113 user 0.215 sys 61.154 real
init: 1 calls 0.000 user 0.000 sys 0.006 real
markDup: 26026 calls 0.834 user 0.014 sys 1.278 real
vcfadvance: 26026 calls 0.015 user 0.136 sys 0.045 real
write: 3219322 calls 2.339 user 5.389 sys 7.615 real
overall: 602415104 mem 13.625 user 44.327 sys 3.903 real