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% @chr1:161000001, elapsed 0.1s, est remaining 1.3s, peak mem 81MB, user 0.1s, sys 1.4s, output queue size 6
progress 10% @chr2:74000001, elapsed 0.1s, est remaining 1.1s, peak mem 81MB, user 0.3s, sys 3.2s, output queue size 3
progress 15% @chr2:233000001, elapsed 0.2s, est remaining 1.0s, peak mem 81MB, user 0.4s, sys 4.8s, output queue size 2
progress 20% @chr3:152000001, elapsed 0.2s, est remaining 1.0s, peak mem 81MB, user 0.5s, sys 6.5s, output queue size 1
progress 25% @chr4:113000001, elapsed 0.3s, est remaining 0.9s, peak mem 81MB, user 0.7s, sys 8.3s, output queue size 2
progress 30% @chr5:86000001, elapsed 0.4s, est remaining 0.8s, peak mem 81MB, user 0.8s, sys 9.9s, output queue size 4
progress 35% @chr6:64000001, elapsed 0.4s, est remaining 0.8s, peak mem 81MB, user 1.0s, sys 11.6s, output queue size 2
progress 40% @chr7:31000001, elapsed 0.5s, est remaining 0.7s, peak mem 81MB, user 1.2s, sys 13.2s, output queue size 24
progress 45% @chr8:58000001, elapsed 0.5s, est remaining 0.7s, peak mem 81MB, user 1.3s, sys 14.9s, output queue size 23
progress 50% @chr9:74000001, elapsed 0.6s, est remaining 0.6s, peak mem 81MB, user 1.5s, sys 16.6s, output queue size 19
progress 55% @chr10:97000001, elapsed 0.7s, est remaining 0.5s, peak mem 81MB, user 1.6s, sys 18.3s, output queue size 20
progress 60% @chr11:123000001, elapsed 0.7s, est remaining 0.5s, peak mem 81MB, user 1.7s, sys 20.0s, output queue size 20
progress 65% @chr13:17000001, elapsed 0.8s, est remaining 0.4s, peak mem 81MB, user 1.9s, sys 21.7s, output queue size 13
progress 70% @chr14:34000001, elapsed 0.8s, est remaining 0.4s, peak mem 81MB, user 2.0s, sys 23.4s, output queue size 27
progress 75% @chr16:15000001, elapsed 0.9s, est remaining 0.3s, peak mem 81MB, user 2.1s, sys 25.0s, output queue size 21
progress 80% @chr18:2000001, elapsed 1.0s, est remaining 0.2s, peak mem 81MB, user 2.3s, sys 26.7s, output queue size 18
progress 85% @chr20:24000001, elapsed 1.0s, est remaining 0.2s, peak mem 81MB, user 2.3s, sys 28.5s, output queue size 21
progress 90% @chrX:30000001, elapsed 1.1s, est remaining 0.1s, peak mem 114MB, user 3.0s, sys 30.3s, output queue size 114
progress 95% @chrY:32000001, elapsed 1.2s, est remaining 0.1s, peak mem 141MB, user 3.3s, sys 32.7s, output queue size 271
progress 100% @chr21:41000001, elapsed 1.4s, est remaining 0.0s, peak mem 162MB, user 4.0s, sys 35.2s, 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 384
algo: LocusCollector
license: sentieon:Dedup=31
input file size: 49121348
reads: 1001838
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.021 user 0.021 sys 0.051 real
VcfLineRecordHelper::sort: 30 calls 0.000 user 0.000 sys 0.000 real
advance: 3219322 calls 1.495 user 6.628 sys 8.432 real
calc: 3219322 calls 0.358 user 5.636 sys 6.323 real
done: 1 calls 0.021 user 0.021 sys 0.051 real
execute: 1 calls 0.002 user 0.002 sys 1.450 real
fetch: 3219322 calls 0.397 user 5.396 sys 6.275 real
idle: 78 calls 0.001 user 0.006 sys 36.056 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 217128960 mem 4.106 user 35.739 sys 2.512 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% @chr1:155000001, elapsed 0.2s, est remaining 3.6s, peak mem 180MB, user 0.3s, sys 4.7s, output queue size 26
progress 10% @chr2:86000001, elapsed 0.4s, est remaining 3.3s, peak mem 195MB, user 0.7s, sys 9.9s, output queue size 21
progress 15% @chr2:220000001, elapsed 0.6s, est remaining 3.3s, peak mem 222MB, user 1.0s, sys 16.0s, output queue size 15
progress 20% @chr3:175000001, elapsed 0.8s, est remaining 3.2s, peak mem 228MB, user 1.3s, sys 22.4s, output queue size 19
progress 25% @chr4:136000001, elapsed 1.0s, est remaining 3.1s, peak mem 231MB, user 1.7s, sys 28.8s, output queue size 30
progress 30% @chr5:79000001, elapsed 1.2s, est remaining 2.9s, peak mem 246MB, user 2.0s, sys 35.6s, output queue size 12
progress 35% @chr6:56000001, elapsed 1.5s, est remaining 2.7s, peak mem 252MB, user 2.2s, sys 42.1s, output queue size 20
progress 40% @chr7:68000001, elapsed 1.7s, est remaining 2.5s, peak mem 258MB, user 2.5s, sys 48.4s, output queue size 19
progress 45% @chr8:48000001, elapsed 1.9s, est remaining 2.3s, peak mem 261MB, user 2.9s, sys 54.7s, output queue size 9
progress 50% @chr9:65000001, elapsed 2.1s, est remaining 2.1s, peak mem 264MB, user 3.2s, sys 61.4s, output queue size 21
progress 55% @chr10:88000001, elapsed 2.4s, est remaining 1.9s, peak mem 264MB, user 3.5s, sys 68.2s, output queue size 9
progress 60% @chr11:67000001, elapsed 2.6s, est remaining 1.7s, peak mem 264MB, user 3.8s, sys 75.1s, output queue size 56
progress 65% @chr13:8000001, elapsed 2.8s, est remaining 1.5s, peak mem 267MB, user 4.2s, sys 82.0s, output queue size 20
progress 70% @chr14:62000001, elapsed 3.1s, est remaining 1.3s, peak mem 267MB, user 4.5s, sys 89.1s, output queue size 8
progress 75% @chr16:15000001, elapsed 3.3s, est remaining 1.1s, peak mem 270MB, user 4.9s, sys 96.1s, output queue size 2
progress 80% @chr17:76000001, elapsed 3.5s, est remaining 0.9s, peak mem 270MB, user 5.2s, sys 103.1s, output queue size 8
progress 85% @chr20:18000001, elapsed 3.8s, est remaining 0.7s, peak mem 273MB, user 5.5s, sys 110.4s, output queue size 4
progress 90% @chrX:25000001, elapsed 4.2s, est remaining 0.5s, peak mem 459MB, user 8.6s, sys 115.1s, output queue size 114
progress 95% @chrY:26000001, elapsed 4.4s, est remaining 0.2s, peak mem 477MB, user 12.5s, sys 121.2s, output queue size 240
progress 100% @chr21:41000001, elapsed 5.4s, est remaining 0.0s, peak mem 486MB, user 15.0s, sys 128.2s, 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 6.12.88
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 384
algo: Dedup
license: sentieon:Dedup=31
input file size: 49121348
reads: 1001838
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 28282 calls 0.001 user 0.050 sys 0.084 real
MateInfoByVcf::load: 28282 calls 4.399 user 1.622 sys 4.666 real
MateInfoByVcf::parse_events: 28282 calls 4.363 user 1.449 sys 4.307 real
advance: 3219322 calls 1.308 user 15.691 sys 18.238 real
calc: 3219322 calls 4.787 user 46.687 sys 52.584 real
done: 1 calls 0.000 user 0.000 sys 0.004 real
exec_no_coor: 1 calls 0.000 user 0.004 sys 0.000 real
execute: 1 calls 0.005 user 0.000 sys 5.459 real
fetch: 3219323 calls 0.371 user 15.171 sys 15.890 real
find_pairEnds: 28282 calls 0.226 user 0.083 sys 0.420 real
idle: 1026 calls 0.027 user 0.108 sys 53.168 real
init: 1 calls 0.003 user 0.000 sys 0.006 real
markDup: 28282 calls 0.879 user 0.396 sys 1.788 real
vcfadvance: 28282 calls 0.012 user 0.089 sys 0.295 real
write: 3219323 calls 2.389 user 16.340 sys 18.034 real
overall: 512909312 mem 15.512 user 129.489 sys 6.485 real