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 1.3s, peak mem 81MB, user 0.1s, sys 1.6s, output queue size 9
progress 10% @chr2:72000001, elapsed 0.1s, est remaining 1.2s, peak mem 81MB, user 0.2s, sys 3.4s, output queue size 7
progress 15% @chr2:237000001, elapsed 0.2s, est remaining 1.1s, peak mem 81MB, user 0.3s, sys 5.2s, output queue size 15
progress 20% @chr3:155000001, elapsed 0.3s, est remaining 1.1s, peak mem 81MB, user 0.4s, sys 7.1s, output queue size 17
progress 25% @chr4:115000001, elapsed 0.3s, est remaining 1.0s, peak mem 81MB, user 0.6s, sys 9.2s, output queue size 17
progress 30% @chr5:87000001, elapsed 0.4s, est remaining 0.9s, peak mem 81MB, user 0.8s, sys 11.2s, output queue size 22
progress 35% @chr6:64000001, elapsed 0.5s, est remaining 0.9s, peak mem 81MB, user 0.9s, sys 13.1s, output queue size 18
progress 40% @chr7:56000001, elapsed 0.5s, est remaining 0.8s, peak mem 81MB, user 1.1s, sys 15.1s, output queue size 15
progress 45% @chr8:57000001, elapsed 0.6s, est remaining 0.7s, peak mem 81MB, user 1.2s, sys 17.1s, output queue size 14
progress 50% @chr9:74000001, elapsed 0.7s, est remaining 0.7s, peak mem 81MB, user 1.3s, sys 19.0s, output queue size 11
progress 55% @chr10:95000001, elapsed 0.7s, est remaining 0.6s, peak mem 81MB, user 1.5s, sys 20.9s, output queue size 9
progress 60% @chr11:123000001, elapsed 0.8s, est remaining 0.5s, peak mem 81MB, user 1.6s, sys 22.9s, output queue size 15
progress 65% @chr13:16000001, elapsed 0.9s, est remaining 0.5s, peak mem 81MB, user 1.7s, sys 24.9s, output queue size 3
progress 70% @chr14:61000001, elapsed 0.9s, est remaining 0.4s, peak mem 81MB, user 1.9s, sys 26.9s, output queue size 8
progress 75% @chr16:12000001, elapsed 1.0s, est remaining 0.3s, peak mem 81MB, user 2.0s, sys 28.9s, output queue size 1
progress 80% @chr18:1, elapsed 1.1s, est remaining 0.3s, peak mem 81MB, user 2.1s, sys 31.0s, output queue size 3
progress 85% @chr20:20000001, elapsed 1.2s, est remaining 0.2s, peak mem 81MB, user 2.3s, sys 33.1s, output queue size 4
progress 90% @chrX:31000001, elapsed 1.3s, est remaining 0.1s, peak mem 124MB, user 3.0s, sys 34.7s, output queue size 114
progress 95% @chrY:31000001, elapsed 1.4s, est remaining 0.1s, peak mem 156MB, user 3.3s, sys 37.1s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.6s, est remaining 0.0s, peak mem 175MB, user 4.1s, sys 40.1s, 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: 51297583
reads: 1001133
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.030 user 0.005 sys 0.046 real
VcfLineRecordHelper::sort: 31 calls 0.000 user 0.000 sys 0.000 real
advance: 3219322 calls 1.380 user 7.872 sys 9.423 real
calc: 3219322 calls 0.414 user 6.366 sys 6.812 real
done: 1 calls 0.030 user 0.005 sys 0.046 real
execute: 1 calls 0.002 user 0.005 sys 1.615 real
fetch: 3219322 calls 0.377 user 6.217 sys 6.774 real
idle: 75 calls 0.010 user 0.017 sys 35.988 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 227045376 mem 4.222 user 40.752 sys 2.675 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% @chr1:141000001, elapsed 0.1s, est remaining 2.2s, peak mem 175MB, user 0.3s, sys 2.7s, output queue size 20
progress 10% @chr2:75000001, elapsed 0.2s, est remaining 1.8s, peak mem 208MB, user 0.5s, sys 5.3s, output queue size 19
progress 15% @chr2:235000001, elapsed 0.3s, est remaining 1.7s, peak mem 226MB, user 0.7s, sys 7.8s, output queue size 4
progress 20% @chr3:153000001, elapsed 0.4s, est remaining 1.5s, peak mem 239MB, user 1.0s, sys 10.2s, output queue size 2
progress 25% @chr4:117000001, elapsed 0.5s, est remaining 1.4s, peak mem 248MB, user 1.1s, sys 12.7s, output queue size 20
progress 30% @chr5:86000001, elapsed 0.6s, est remaining 1.3s, peak mem 256MB, user 1.3s, sys 15.2s, output queue size 4
progress 35% @chr6:64000001, elapsed 0.6s, est remaining 1.2s, peak mem 265MB, user 1.6s, sys 17.7s, output queue size 5
progress 40% @chr7:55000001, elapsed 0.7s, est remaining 1.1s, peak mem 271MB, user 1.7s, sys 20.2s, output queue size 16
progress 45% @chr8:58000001, elapsed 0.8s, est remaining 1.0s, peak mem 274MB, user 2.0s, sys 22.7s, output queue size 7
progress 50% @chr9:72000001, elapsed 0.9s, est remaining 0.9s, peak mem 283MB, user 2.1s, sys 25.3s, output queue size 12
progress 55% @chr10:96000001, elapsed 1.0s, est remaining 0.8s, peak mem 286MB, user 2.3s, sys 27.8s, output queue size 5
progress 60% @chr11:124000001, elapsed 1.1s, est remaining 0.7s, peak mem 287MB, user 2.6s, sys 30.3s, output queue size 19
progress 65% @chr13:17000001, elapsed 1.2s, est remaining 0.6s, peak mem 295MB, user 2.9s, sys 32.8s, output queue size 20
progress 70% @chr14:63000001, elapsed 1.3s, est remaining 0.5s, peak mem 299MB, user 3.2s, sys 35.4s, output queue size 16
progress 75% @chr16:15000001, elapsed 1.4s, est remaining 0.5s, peak mem 299MB, user 3.4s, sys 38.0s, output queue size 3
progress 80% @chr18:1, elapsed 1.4s, est remaining 0.4s, peak mem 299MB, user 3.5s, sys 40.7s, output queue size 7
progress 85% @chr20:23000001, elapsed 1.5s, est remaining 0.3s, peak mem 301MB, user 3.7s, sys 43.4s, output queue size 9
progress 90% @chrX:37000001, elapsed 1.7s, est remaining 0.2s, peak mem 521MB, user 5.8s, sys 44.7s, output queue size 114
progress 95% @chrY:39000001, elapsed 1.8s, est remaining 0.1s, peak mem 541MB, user 7.3s, sys 45.9s, output queue size 271
progress 100% @chr21:41000001, elapsed 3.0s, est remaining 0.0s, peak mem 568MB, user 12.8s, sys 47.6s, 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: 51297583
reads: 1001133
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 26026 calls 0.000 user 0.010 sys 0.023 real
MateInfoByVcf::load: 26026 calls 4.513 user 0.635 sys 4.026 real
MateInfoByVcf::parse_events: 26026 calls 4.477 user 0.599 sys 3.913 real
advance: 3219322 calls 1.088 user 5.753 sys 7.546 real
calc: 3219322 calls 4.126 user 17.047 sys 22.246 real
done: 1 calls 0.000 user 0.000 sys 0.003 real
exec_no_coor: 1 calls 0.000 user 0.008 sys 0.000 real
execute: 1 calls 0.002 user 0.001 sys 3.004 real
fetch: 3219322 calls 0.361 user 5.725 sys 6.137 real
find_pairEnds: 26026 calls 0.244 user 0.011 sys 0.337 real
idle: 1828 calls 0.142 user 0.140 sys 60.124 real
init: 1 calls 0.010 user 0.000 sys 0.006 real
markDup: 26026 calls 0.819 user 0.046 sys 1.269 real
vcfadvance: 26026 calls 0.008 user 0.127 sys 0.044 real
write: 3219322 calls 2.243 user 5.696 sys 8.249 real
overall: 596066304 mem 13.722 user 48.668 sys 4.026 real