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% @chr1:159000001, elapsed 0.1s, est remaining 1.4s, peak mem 78MB, user 0.2s, sys 1.6s, output queue size 6
progress 10% @chr2:74000001, elapsed 0.1s, est remaining 1.2s, peak mem 78MB, user 0.3s, sys 3.4s, output queue size 1
progress 15% @chr2:233000001, elapsed 0.2s, est remaining 1.1s, peak mem 78MB, user 0.4s, sys 5.3s, output queue size 2
progress 20% @chr3:152000001, elapsed 0.3s, est remaining 1.1s, peak mem 78MB, user 0.5s, sys 7.1s, output queue size 1
progress 25% @chr4:115000001, elapsed 0.3s, est remaining 1.0s, peak mem 78MB, user 0.7s, sys 8.9s, output queue size 21
progress 30% @chr5:86000001, elapsed 0.4s, est remaining 0.9s, peak mem 78MB, user 0.9s, sys 10.6s, output queue size 14
progress 35% @chr6:65000001, elapsed 0.5s, est remaining 0.8s, peak mem 78MB, user 1.0s, sys 12.5s, output queue size 6
progress 40% @chr7:55000001, elapsed 0.5s, est remaining 0.8s, peak mem 78MB, user 1.2s, sys 14.2s, output queue size 1
progress 45% @chr8:56000001, elapsed 0.6s, est remaining 0.7s, peak mem 78MB, user 1.4s, sys 16.1s, output queue size 1
progress 50% @chr9:72000001, elapsed 0.6s, est remaining 0.6s, peak mem 78MB, user 1.5s, sys 17.9s, output queue size 1
progress 55% @chr10:94000001, elapsed 0.7s, est remaining 0.6s, peak mem 78MB, user 1.7s, sys 19.7s, output queue size 1
progress 60% @chr11:122000001, elapsed 0.8s, est remaining 0.5s, peak mem 78MB, user 1.8s, sys 21.6s, output queue size 27
progress 65% @chr13:15000001, elapsed 0.8s, est remaining 0.5s, peak mem 78MB, user 2.0s, sys 23.4s, output queue size 12
progress 70% @chr14:61000001, elapsed 0.9s, est remaining 0.4s, peak mem 78MB, user 2.1s, sys 25.2s, output queue size 8
progress 75% @chr16:12000001, elapsed 1.0s, est remaining 0.3s, peak mem 78MB, user 2.3s, sys 27.1s, output queue size 1
progress 80% @chr17:79000001, elapsed 1.0s, est remaining 0.3s, peak mem 78MB, user 2.4s, sys 29.0s, output queue size 5
progress 85% @chr20:21000001, elapsed 1.1s, est remaining 0.2s, peak mem 78MB, user 2.5s, sys 31.0s, output queue size 1
progress 90% @chrX:45000001, elapsed 1.2s, est remaining 0.1s, peak mem 108MB, user 3.2s, sys 33.1s, output queue size 114
progress 95% @chrY:54000001, elapsed 1.4s, est remaining 0.1s, peak mem 129MB, user 3.4s, sys 37.6s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.8s, est remaining 0.0s, peak mem 156MB, user 4.2s, sys 44.7s, 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: 49121345
reads: 1001838
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.014 user 0.023 sys 0.049 real
VcfLineRecordHelper::sort: 29 calls 0.000 user 0.000 sys 0.000 real
advance: 3219322 calls 1.493 user 10.152 sys 11.635 real
calc: 3219322 calls 0.411 user 6.486 sys 7.333 real
done: 1 calls 0.014 user 0.023 sys 0.049 real
execute: 1 calls 0.001 user 0.000 sys 1.808 real
fetch: 3219322 calls 0.334 user 7.295 sys 7.238 real
idle: 78 calls 0.003 user 0.015 sys 37.179 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 214007808 mem 4.393 user 45.352 sys 2.868 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% @chr1:159000001, elapsed 0.1s, est remaining 2.1s, peak mem 171MB, user 0.4s, sys 2.5s, output queue size 5
progress 10% @chr2:75000001, elapsed 0.2s, est remaining 1.8s, peak mem 207MB, user 0.7s, sys 4.9s, output queue size 12
progress 15% @chr2:233000001, elapsed 0.3s, est remaining 1.6s, peak mem 228MB, user 0.9s, sys 7.2s, output queue size 20
progress 20% @chr3:152000001, elapsed 0.4s, est remaining 1.5s, peak mem 252MB, user 1.2s, sys 9.6s, output queue size 1
progress 25% @chr4:115000001, elapsed 0.5s, est remaining 1.4s, peak mem 252MB, user 1.5s, sys 11.9s, output queue size 2
progress 30% @chr5:85000001, elapsed 0.5s, est remaining 1.2s, peak mem 252MB, user 1.7s, sys 14.3s, output queue size 1
progress 35% @chr6:64000001, elapsed 0.6s, est remaining 1.2s, peak mem 255MB, user 1.9s, sys 16.8s, output queue size 1
progress 40% @chr7:55000001, elapsed 0.7s, est remaining 1.1s, peak mem 258MB, user 2.1s, sys 19.2s, output queue size 2
progress 45% @chr8:56000001, elapsed 0.8s, est remaining 1.0s, peak mem 258MB, user 2.2s, sys 21.6s, output queue size 1
progress 50% @chr9:73000001, elapsed 0.9s, est remaining 0.9s, peak mem 258MB, user 2.5s, sys 24.0s, output queue size 3
progress 55% @chr10:94000001, elapsed 1.0s, est remaining 0.8s, peak mem 258MB, user 2.6s, sys 26.4s, output queue size 8
progress 60% @chr11:114000001, elapsed 1.0s, est remaining 0.7s, peak mem 261MB, user 2.8s, sys 28.9s, output queue size 17
progress 65% @chr13:14000001, elapsed 1.1s, est remaining 0.6s, peak mem 264MB, user 3.0s, sys 31.4s, output queue size 1
progress 70% @chr14:60000001, elapsed 1.2s, est remaining 0.5s, peak mem 267MB, user 3.2s, sys 33.9s, output queue size 8
progress 75% @chr16:11000001, elapsed 1.3s, est remaining 0.4s, peak mem 270MB, user 3.3s, sys 36.4s, output queue size 2
progress 80% @chr17:74000001, elapsed 1.5s, est remaining 0.4s, peak mem 273MB, user 3.7s, sys 41.8s, output queue size 23
progress 85% @chr20:12000001, elapsed 1.7s, est remaining 0.3s, peak mem 273MB, user 4.0s, sys 48.3s, output queue size 10
progress 90% @chrX:26000001, elapsed 2.1s, est remaining 0.2s, peak mem 489MB, user 7.3s, sys 52.4s, output queue size 114
progress 95% @chrY:24000001, elapsed 2.3s, est remaining 0.1s, peak mem 504MB, user 10.8s, sys 58.1s, output queue size 240
progress 100% @chr21:41000001, elapsed 3.3s, est remaining 0.0s, peak mem 513MB, user 13.2s, sys 64.7s, 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: 49121345
reads: 1001838
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 28282 calls 0.000 user 0.050 sys 0.062 real
MateInfoByVcf::load: 28282 calls 4.214 user 1.028 sys 4.025 real
MateInfoByVcf::parse_events: 28282 calls 4.171 user 0.912 sys 3.759 real
advance: 3219322 calls 1.118 user 7.979 sys 9.944 real
calc: 3219322 calls 4.494 user 23.388 sys 28.485 real
done: 1 calls 0.000 user 0.000 sys 0.004 real
exec_no_coor: 1 calls 0.008 user 0.000 sys 0.002 real
execute: 1 calls 0.000 user 0.001 sys 3.305 real
fetch: 3219323 calls 0.372 user 7.986 sys 8.001 real
find_pairEnds: 28282 calls 0.231 user 0.028 sys 0.376 real
idle: 1020 calls 0.052 user 0.166 sys 52.510 real
init: 1 calls 0.001 user 0.009 sys 0.006 real
markDup: 28282 calls 0.807 user 0.181 sys 1.468 real
vcfadvance: 28282 calls 0.018 user 0.087 sys 0.097 real
write: 3219323 calls 2.447 user 7.648 sys 10.269 real
overall: 538075136 mem 13.674 user 66.202 sys 4.332 real