cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i Sig_18_tissue.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info Sig_18_tissue.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:162000001, elapsed 0.1s, est remaining 2.5s, peak mem 81MB, user 0.2s, sys 3.1s, output queue size 26
progress 10% @chr2:70000001, elapsed 0.2s, est remaining 2.2s, peak mem 81MB, user 0.3s, sys 6.6s, output queue size 3
progress 15% @chr2:234000001, elapsed 0.4s, est remaining 2.0s, peak mem 81MB, user 0.4s, sys 10.1s, output queue size 4
progress 20% @chr3:154000001, elapsed 0.5s, est remaining 1.9s, peak mem 81MB, user 0.7s, sys 13.6s, output queue size 7
progress 25% @chr4:115000001, elapsed 0.6s, est remaining 1.8s, peak mem 81MB, user 0.8s, sys 17.0s, output queue size 6
progress 30% @chr5:87000001, elapsed 0.7s, est remaining 1.7s, peak mem 81MB, user 0.9s, sys 20.5s, output queue size 7
progress 35% @chr6:64000001, elapsed 0.8s, est remaining 1.5s, peak mem 81MB, user 1.0s, sys 23.9s, output queue size 10
progress 40% @chr7:55000001, elapsed 0.9s, est remaining 1.4s, peak mem 81MB, user 1.1s, sys 27.4s, output queue size 11
progress 45% @chr8:59000001, elapsed 1.1s, est remaining 1.3s, peak mem 81MB, user 1.2s, sys 30.8s, output queue size 15
progress 50% @chr9:72000001, elapsed 1.2s, est remaining 1.2s, peak mem 81MB, user 1.4s, sys 34.2s, output queue size 13
progress 55% @chr10:93000001, elapsed 1.3s, est remaining 1.0s, peak mem 81MB, user 1.5s, sys 37.5s, output queue size 14
progress 60% @chr11:122000001, elapsed 1.4s, est remaining 0.9s, peak mem 81MB, user 1.7s, sys 40.8s, output queue size 16
progress 65% @chr13:14000001, elapsed 1.5s, est remaining 0.8s, peak mem 81MB, user 1.9s, sys 44.1s, output queue size 18
progress 70% @chr14:63000001, elapsed 1.6s, est remaining 0.7s, peak mem 81MB, user 2.0s, sys 47.5s, output queue size 18
progress 75% @chr15:97000001, elapsed 1.7s, est remaining 0.6s, peak mem 81MB, user 2.1s, sys 50.8s, output queue size 18
progress 80% @chr17:82000001, elapsed 1.8s, est remaining 0.5s, peak mem 81MB, user 2.3s, sys 54.2s, output queue size 2
progress 85% @chr20:21000001, elapsed 2.0s, est remaining 0.3s, peak mem 81MB, user 2.4s, sys 57.5s, output queue size 1
progress 90% @chrX:30000001, elapsed 2.1s, est remaining 0.2s, peak mem 124MB, user 3.0s, sys 60.3s, output queue size 114
progress 95% @chrY:30000001, elapsed 2.2s, est remaining 0.1s, peak mem 150MB, user 3.3s, sys 63.9s, output queue size 271
progress 100% @chr21:41000001, elapsed 2.5s, est remaining 0.0s, peak mem 168MB, user 4.0s, sys 67.8s, 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: 49122825
reads: 1001838
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.035 user 0.001 sys 0.045 real
VcfLineRecordHelper::sort: 31 calls 0.000 user 0.000 sys 0.000 real
advance: 3219322 calls 1.494 user 12.881 sys 15.000 real
calc: 3219322 calls 0.554 user 10.417 sys 11.705 real
done: 1 calls 0.035 user 0.001 sys 0.045 real
execute: 1 calls 0.001 user 0.004 sys 2.505 real
fetch: 3219322 calls 0.321 user 10.995 sys 11.641 real
idle: 75 calls 0.004 user 0.010 sys 35.883 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 219242496 mem 4.150 user 68.452 sys 3.565 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i Sig_18_tissue.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info Sig_18_tissue.md.score --metrics Sig_18_tissue.md.metrics Sig_18_tissue.md.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:164000001, elapsed 0.1s, est remaining 2.0s, peak mem 208MB, user 0.3s, sys 2.3s, output queue size 23
progress 10% @chr2:75000001, elapsed 0.2s, est remaining 1.6s, peak mem 232MB, user 0.6s, sys 4.4s, output queue size 28
progress 15% @chr2:237000001, elapsed 0.3s, est remaining 1.5s, peak mem 243MB, user 0.8s, sys 6.7s, output queue size 34
progress 20% @chr3:154000001, elapsed 0.3s, est remaining 1.4s, peak mem 259MB, user 1.0s, sys 8.9s, output queue size 19
progress 25% @chr4:116000001, elapsed 0.4s, est remaining 1.3s, peak mem 270MB, user 1.2s, sys 11.1s, output queue size 6
progress 30% @chr5:87000001, elapsed 0.5s, est remaining 1.2s, peak mem 279MB, user 1.4s, sys 13.4s, output queue size 15
progress 35% @chr6:65000001, elapsed 0.6s, est remaining 1.1s, peak mem 282MB, user 1.6s, sys 15.6s, output queue size 18
progress 40% @chr7:53000001, elapsed 0.7s, est remaining 1.0s, peak mem 282MB, user 1.8s, sys 17.8s, output queue size 5
progress 45% @chr8:60000001, elapsed 0.7s, est remaining 0.9s, peak mem 283MB, user 2.2s, sys 19.9s, output queue size 13
progress 50% @chr9:76000001, elapsed 0.8s, est remaining 0.8s, peak mem 283MB, user 2.3s, sys 22.1s, output queue size 17
progress 55% @chr10:76000001, elapsed 0.9s, est remaining 0.7s, peak mem 289MB, user 2.5s, sys 24.3s, output queue size 19
progress 60% @chr11:121000001, elapsed 1.0s, est remaining 0.6s, peak mem 292MB, user 2.7s, sys 26.6s, output queue size 12
progress 65% @chr13:15000001, elapsed 1.0s, est remaining 0.6s, peak mem 294MB, user 3.0s, sys 28.7s, output queue size 2
progress 70% @chr14:60000001, elapsed 1.1s, est remaining 0.5s, peak mem 295MB, user 3.2s, sys 30.9s, output queue size 1
progress 75% @chr16:13000001, elapsed 1.2s, est remaining 0.4s, peak mem 297MB, user 3.5s, sys 33.2s, output queue size 7
progress 80% @chr18:1000001, elapsed 1.3s, est remaining 0.3s, peak mem 297MB, user 3.7s, sys 35.6s, output queue size 18
progress 85% @chr20:24000001, elapsed 1.4s, est remaining 0.2s, peak mem 298MB, user 3.9s, sys 38.1s, output queue size 10
progress 90% @chr21:13000001, elapsed 1.6s, est remaining 0.2s, peak mem 513MB, user 5.9s, sys 39.5s, output queue size 114
progress 95% @chr21:10000001, elapsed 1.7s, est remaining 0.1s, peak mem 531MB, user 8.0s, sys 40.7s, output queue size 271
progress 100% @chr21:41000001, elapsed 2.7s, est remaining 0.0s, peak mem 549MB, user 12.2s, sys 42.5s, output queue size 3664
library Sig_18_tissue:
chimeric_paired 1886
duped 84376
duped_chimeric_paired 8
duped_paired 84374
duped_unpaired 2
optical_dup 3799
paired 999968
reads 1001834
secondary_supplementary 1858
unmapped 8
unpaired 4
optical dup clusters 3695, maxdup 3, total optical dup pairs 3799
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: 49122825
reads: 1001838
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 28282 calls 0.000 user 0.010 sys 0.026 real
MateInfoByVcf::load: 28282 calls 3.878 user 0.731 sys 3.654 real
MateInfoByVcf::parse_events: 28282 calls 3.868 user 0.672 sys 3.541 real
advance: 3219322 calls 1.177 user 5.515 sys 6.941 real
calc: 3219322 calls 3.933 user 15.324 sys 19.951 real
done: 1 calls 0.000 user 0.000 sys 0.003 real
exec_no_coor: 1 calls 0.006 user 0.000 sys 0.001 real
execute: 1 calls 0.002 user 0.000 sys 2.788 real
fetch: 3219323 calls 0.478 user 4.618 sys 5.904 real
find_pairEnds: 28282 calls 0.220 user 0.008 sys 0.328 real
idle: 1631 calls 0.094 user 0.170 sys 59.412 real
init: 1 calls 0.010 user 0.000 sys 0.006 real
markDup: 28282 calls 0.784 user 0.044 sys 1.231 real
vcfadvance: 28282 calls 0.004 user 0.054 sys 0.040 real
write: 3219323 calls 2.102 user 5.148 sys 7.195 real
overall: 576679936 mem 12.882 user 43.651 sys 3.808 real