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 0.1s, est remaining 1.3s, peak mem 81MB, user 0.2s, sys 1.6s, output queue size 24
progress 10% @chr2:75000001, elapsed 0.1s, est remaining 1.2s, peak mem 81MB, user 0.3s, sys 3.4s, output queue size 6
progress 15% @chr2:232000001, elapsed 0.2s, est remaining 1.1s, peak mem 81MB, user 0.4s, sys 5.3s, output queue size 3
progress 20% @chr3:153000001, elapsed 0.3s, est remaining 1.0s, peak mem 81MB, user 0.5s, sys 7.0s, output queue size 26
progress 25% @chr4:116000001, elapsed 0.3s, est remaining 1.0s, peak mem 81MB, user 0.6s, sys 8.7s, output queue size 7
progress 30% @chr5:84000001, elapsed 0.4s, est remaining 0.9s, peak mem 81MB, user 0.7s, sys 10.5s, output queue size 2
progress 35% @chr6:61000001, elapsed 0.4s, est remaining 0.8s, peak mem 81MB, user 0.8s, sys 12.4s, output queue size 4
progress 40% @chr7:55000001, elapsed 0.5s, est remaining 0.8s, peak mem 81MB, user 1.0s, sys 14.2s, output queue size 28
progress 45% @chr8:56000001, elapsed 0.6s, est remaining 0.7s, peak mem 81MB, user 1.2s, sys 15.9s, output queue size 8
progress 50% @chr9:73000001, elapsed 0.6s, est remaining 0.6s, peak mem 81MB, user 1.3s, sys 17.7s, output queue size 1
progress 55% @chr10:94000001, elapsed 0.7s, est remaining 0.6s, peak mem 81MB, user 1.5s, sys 19.5s, output queue size 1
progress 60% @chr11:123000001, elapsed 0.8s, est remaining 0.5s, peak mem 81MB, user 1.7s, sys 21.2s, output queue size 26
progress 65% @chr13:14000001, elapsed 0.8s, est remaining 0.4s, peak mem 81MB, user 1.8s, sys 23.0s, output queue size 7
progress 70% @chr14:60000001, elapsed 0.9s, est remaining 0.4s, peak mem 81MB, user 1.9s, sys 24.9s, output queue size 1
progress 75% @chr16:14000001, elapsed 0.9s, est remaining 0.3s, peak mem 81MB, user 2.1s, sys 26.7s, output queue size 1
progress 80% @chr18:1000001, elapsed 1.0s, est remaining 0.3s, peak mem 81MB, user 2.2s, sys 28.6s, output queue size 6
progress 85% @chr20:22000001, elapsed 1.1s, est remaining 0.2s, peak mem 81MB, user 2.3s, sys 30.5s, output queue size 16
progress 90% @chrX:30000001, elapsed 1.2s, est remaining 0.1s, peak mem 126MB, user 2.8s, sys 32.1s, output queue size 114
progress 95% @chrY:18000001, elapsed 1.3s, est remaining 0.1s, peak mem 157MB, user 3.1s, sys 34.1s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.5s, est remaining 0.0s, peak mem 180MB, user 3.9s, sys 36.9s, 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: 51301313
reads: 1001133
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.024 user 0.011 sys 0.049 real
VcfLineRecordHelper::sort: 30 calls 0.000 user 0.000 sys 0.000 real
advance: 3219322 calls 1.399 user 7.388 sys 8.983 real
calc: 3219322 calls 0.381 user 6.205 sys 6.197 real
done: 1 calls 0.024 user 0.011 sys 0.049 real
execute: 1 calls 0.001 user 0.001 sys 1.524 real
fetch: 3219322 calls 0.253 user 5.833 sys 6.096 real
idle: 76 calls 0.009 user 0.015 sys 36.493 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 237502464 mem 4.057 user 37.379 sys 2.582 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% @chr1:163000001, elapsed 0.1s, est remaining 2.0s, peak mem 180MB, user 0.3s, sys 2.4s, output queue size 22
progress 10% @chr2:74000001, elapsed 0.2s, est remaining 1.7s, peak mem 217MB, user 0.4s, sys 4.8s, output queue size 7
progress 15% @chr2:234000001, elapsed 0.3s, est remaining 1.5s, peak mem 244MB, user 0.6s, sys 7.1s, output queue size 20
progress 20% @chr3:154000001, elapsed 0.3s, est remaining 1.4s, peak mem 256MB, user 0.8s, sys 9.4s, output queue size 18
progress 25% @chr4:114000001, elapsed 0.4s, est remaining 1.3s, peak mem 267MB, user 1.0s, sys 11.7s, output queue size 1
progress 30% @chr5:86000001, elapsed 0.5s, est remaining 1.2s, peak mem 277MB, user 1.1s, sys 14.0s, output queue size 2
progress 35% @chr6:64000001, elapsed 0.6s, est remaining 1.1s, peak mem 280MB, user 1.4s, sys 16.2s, output queue size 4
progress 40% @chr7:55000001, elapsed 0.7s, est remaining 1.0s, peak mem 282MB, user 1.6s, sys 18.5s, output queue size 12
progress 45% @chr8:58000001, elapsed 0.7s, est remaining 0.9s, peak mem 285MB, user 1.7s, sys 20.8s, output queue size 13
progress 50% @chr9:75000001, elapsed 0.8s, est remaining 0.8s, peak mem 295MB, user 2.0s, sys 23.1s, output queue size 20
progress 55% @chr10:94000001, elapsed 0.9s, est remaining 0.7s, peak mem 300MB, user 2.1s, sys 25.3s, output queue size 1
progress 60% @chr11:121000001, elapsed 1.0s, est remaining 0.7s, peak mem 303MB, user 2.4s, sys 27.6s, output queue size 2
progress 65% @chr13:15000001, elapsed 1.1s, est remaining 0.6s, peak mem 303MB, user 2.6s, sys 30.0s, output queue size 2
progress 70% @chr14:61000001, elapsed 1.2s, est remaining 0.5s, peak mem 304MB, user 2.7s, sys 32.3s, output queue size 13
progress 75% @chr16:13000001, elapsed 1.2s, est remaining 0.4s, peak mem 306MB, user 2.9s, sys 34.7s, output queue size 23
progress 80% @chr18:1, elapsed 1.3s, est remaining 0.3s, peak mem 306MB, user 3.1s, sys 37.1s, output queue size 11
progress 85% @chr20:20000001, elapsed 1.4s, est remaining 0.2s, peak mem 309MB, user 3.2s, sys 39.5s, output queue size 2
progress 90% @chrX:42000001, elapsed 1.6s, est remaining 0.2s, peak mem 520MB, user 5.0s, sys 40.7s, output queue size 114
progress 95% @chrY:38000001, elapsed 1.7s, est remaining 0.1s, peak mem 547MB, user 6.8s, sys 41.7s, output queue size 276
progress 100% @chr21:41000001, elapsed 2.9s, est remaining 0.0s, peak mem 574MB, user 12.3s, sys 43.5s, 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: 51301313
reads: 1001133
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 26026 calls 0.001 user 0.000 sys 0.022 real
MateInfoByVcf::load: 26026 calls 4.366 user 0.590 sys 3.984 real
MateInfoByVcf::parse_events: 26026 calls 4.311 user 0.568 sys 3.875 real
advance: 3219322 calls 0.986 user 5.177 sys 6.844 real
calc: 3219322 calls 4.173 user 15.698 sys 20.228 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 0.003 user 0.005 sys 2.922 real
fetch: 3219322 calls 0.310 user 5.133 sys 5.816 real
find_pairEnds: 26026 calls 0.160 user 0.001 sys 0.333 real
idle: 1931 calls 0.128 user 0.147 sys 62.651 real
init: 1 calls 0.000 user 0.000 sys 0.006 real
markDup: 26026 calls 0.802 user 0.035 sys 1.258 real
vcfadvance: 26026 calls 0.025 user 0.075 sys 0.035 real
write: 3219322 calls 2.448 user 5.228 sys 7.487 real
overall: 601956352 mem 13.027 user 44.504 sys 3.952 real