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% @chr1:164000001, elapsed 0.1s, est remaining 1.5s, peak mem 81MB, user 0.3s, sys 1.6s, output queue size 4
progress 10% @chr2:77000001, elapsed 0.1s, est remaining 1.3s, peak mem 81MB, user 0.5s, sys 3.4s, output queue size 21
progress 15% @chr2:232000001, elapsed 0.2s, est remaining 1.2s, peak mem 81MB, user 0.6s, sys 5.4s, output queue size 3
progress 20% @chr3:152000001, elapsed 0.3s, est remaining 1.1s, peak mem 81MB, user 0.7s, sys 7.3s, output queue size 24
progress 25% @chr4:114000001, elapsed 0.3s, est remaining 1.0s, peak mem 81MB, user 0.9s, sys 9.2s, output queue size 1
progress 30% @chr5:83000001, elapsed 0.4s, est remaining 1.0s, peak mem 81MB, user 1.2s, sys 11.0s, output queue size 6
progress 35% @chr6:64000001, elapsed 0.5s, est remaining 0.9s, peak mem 81MB, user 1.4s, sys 12.9s, output queue size 1
progress 40% @chr7:54000001, elapsed 0.5s, est remaining 0.8s, peak mem 81MB, user 1.7s, sys 14.7s, output queue size 2
progress 45% @chr8:56000001, elapsed 0.6s, est remaining 0.7s, peak mem 81MB, user 1.9s, sys 16.6s, output queue size 1
progress 50% @chr9:73000001, elapsed 0.7s, est remaining 0.7s, peak mem 81MB, user 2.2s, sys 18.4s, output queue size 3
progress 55% @chr10:97000001, elapsed 0.7s, est remaining 0.6s, peak mem 81MB, user 2.3s, sys 20.2s, output queue size 1
progress 60% @chr11:123000001, elapsed 0.8s, est remaining 0.5s, peak mem 81MB, user 2.5s, sys 22.1s, output queue size 6
progress 65% @chr13:15000001, elapsed 0.9s, est remaining 0.5s, peak mem 81MB, user 2.8s, sys 24.0s, output queue size 12
progress 70% @chr14:61000001, elapsed 1.0s, est remaining 0.4s, peak mem 81MB, user 3.0s, sys 25.8s, output queue size 9
progress 75% @chr16:14000001, elapsed 1.0s, est remaining 0.3s, peak mem 81MB, user 3.2s, sys 27.7s, output queue size 12
progress 80% @chr18:1000001, elapsed 1.1s, est remaining 0.3s, peak mem 81MB, user 3.4s, sys 29.6s, output queue size 10
progress 85% @chr20:25000001, elapsed 1.2s, est remaining 0.2s, peak mem 81MB, user 3.6s, sys 31.6s, output queue size 16
progress 90% @chrX:21000001, elapsed 1.3s, est remaining 0.1s, peak mem 123MB, user 4.1s, sys 33.6s, output queue size 114
progress 95% @chrY:31000001, elapsed 1.4s, est remaining 0.1s, peak mem 159MB, user 4.4s, sys 36.3s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.6s, est remaining 0.0s, peak mem 178MB, user 5.2s, sys 39.8s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
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: 51301109
reads: 1001133
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.018 user 0.023 sys 0.047 real
VcfLineRecordHelper::sort: 31 calls 0.000 user 0.000 sys 0.000 real
advance: 3219322 calls 1.283 user 7.739 sys 9.609 real
calc: 3219322 calls 0.542 user 6.366 sys 6.925 real
done: 1 calls 0.018 user 0.023 sys 0.047 real
execute: 1 calls 0.000 user 0.001 sys 1.635 real
fetch: 3219322 calls 0.334 user 6.526 sys 6.885 real
idle: 80 calls 0.014 user 0.014 sys 35.720 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 228634624 mem 5.362 user 40.379 sys 2.701 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 2.1s, peak mem 184MB, user 0.3s, sys 2.6s, output queue size 6
progress 10% @chr2:72000001, elapsed 0.2s, est remaining 1.8s, peak mem 216MB, user 0.5s, sys 5.0s, output queue size 1
progress 15% @chr2:236000001, elapsed 0.3s, est remaining 1.6s, peak mem 238MB, user 0.8s, sys 7.3s, output queue size 2
progress 20% @chr3:153000001, elapsed 0.4s, est remaining 1.5s, peak mem 244MB, user 0.9s, sys 9.6s, output queue size 20
progress 25% @chr4:115000001, elapsed 0.4s, est remaining 1.3s, peak mem 255MB, user 1.2s, sys 11.9s, output queue size 12
progress 30% @chr5:84000001, elapsed 0.5s, est remaining 1.2s, peak mem 268MB, user 1.3s, sys 14.3s, output queue size 5
progress 35% @chr6:65000001, elapsed 0.6s, est remaining 1.1s, peak mem 274MB, user 1.6s, sys 16.6s, output queue size 1
progress 40% @chr7:54000001, elapsed 0.7s, est remaining 1.0s, peak mem 276MB, user 1.8s, sys 18.9s, output queue size 1
progress 45% @chr8:57000001, elapsed 0.8s, est remaining 0.9s, peak mem 283MB, user 2.0s, sys 21.2s, output queue size 1
progress 50% @chr9:72000001, elapsed 0.9s, est remaining 0.9s, peak mem 292MB, user 2.2s, sys 23.6s, output queue size 1
progress 55% @chr10:95000001, elapsed 0.9s, est remaining 0.8s, peak mem 294MB, user 2.4s, sys 26.0s, output queue size 27
progress 60% @chr11:122000001, elapsed 1.0s, est remaining 0.7s, peak mem 295MB, user 2.6s, sys 28.3s, output queue size 15
progress 65% @chr13:15000001, elapsed 1.1s, est remaining 0.6s, peak mem 295MB, user 2.8s, sys 30.7s, output queue size 11
progress 70% @chr14:60000001, elapsed 1.2s, est remaining 0.5s, peak mem 298MB, user 3.0s, sys 33.1s, output queue size 1
progress 75% @chr16:13000001, elapsed 1.3s, est remaining 0.4s, peak mem 298MB, user 3.3s, sys 35.5s, output queue size 1
progress 80% @chr17:61000001, elapsed 1.4s, est remaining 0.3s, peak mem 301MB, user 3.5s, sys 38.1s, output queue size 23
progress 85% @chr20:22000001, elapsed 1.5s, est remaining 0.3s, peak mem 304MB, user 3.7s, sys 40.6s, output queue size 4
progress 90% @chrX:39000001, elapsed 1.7s, est remaining 0.2s, peak mem 540MB, user 5.8s, sys 42.0s, output queue size 114
progress 95% @chrY:38000001, elapsed 1.7s, est remaining 0.1s, peak mem 546MB, user 7.2s, sys 43.1s, output queue size 276
progress 100% @chr21:41000001, elapsed 2.9s, est remaining 0.0s, peak mem 572MB, user 12.5s, sys 45.1s, 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: 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: 51301109
reads: 1001133
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 26026 calls 0.000 user 0.020 sys 0.023 real
MateInfoByVcf::load: 26026 calls 4.261 user 0.708 sys 3.978 real
MateInfoByVcf::parse_events: 26026 calls 4.186 user 0.657 sys 3.866 real
advance: 3219322 calls 0.994 user 5.595 sys 7.192 real
calc: 3219322 calls 4.122 user 16.570 sys 21.037 real
done: 1 calls 0.001 user 0.000 sys 0.003 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.001 user 0.005 sys 2.914 real
fetch: 3219322 calls 0.344 user 5.139 sys 5.852 real
find_pairEnds: 26026 calls 0.239 user 0.023 sys 0.336 real
idle: 1683 calls 0.091 user 0.165 sys 60.233 real
init: 1 calls 0.000 user 0.010 sys 0.006 real
markDup: 26026 calls 0.851 user 0.084 sys 1.275 real
vcfadvance: 26026 calls 0.026 user 0.106 sys 0.059 real
write: 3219322 calls 2.298 user 5.583 sys 7.854 real
overall: 600772608 mem 13.292 user 46.311 sys 3.939 real