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% @chr1:146000001, elapsed 0.2s, est remaining 2.9s, peak mem 81MB, user 0.3s, sys 3.5s, output queue size 22
progress 10% @chr2:98000001, elapsed 0.3s, est remaining 2.5s, peak mem 81MB, user 0.5s, sys 7.6s, output queue size 32
progress 15% @chr3:15000001, elapsed 0.4s, est remaining 2.5s, peak mem 81MB, user 0.7s, sys 12.2s, output queue size 32
progress 20% @chr3:130000001, elapsed 0.6s, est remaining 2.5s, peak mem 81MB, user 0.9s, sys 17.3s, output queue size 31
progress 25% @chr4:143000001, elapsed 0.8s, est remaining 2.4s, peak mem 81MB, user 1.2s, sys 22.2s, output queue size 29
progress 30% @chr5:113000001, elapsed 1.0s, est remaining 2.3s, peak mem 81MB, user 1.4s, sys 27.5s, output queue size 30
progress 35% @chr6:92000001, elapsed 1.2s, est remaining 2.2s, peak mem 81MB, user 1.6s, sys 32.9s, output queue size 41
progress 40% @chr7:81000001, elapsed 1.4s, est remaining 2.0s, peak mem 81MB, user 1.7s, sys 39.1s, output queue size 26
progress 45% @chr8:12000001, elapsed 1.6s, est remaining 1.9s, peak mem 81MB, user 2.0s, sys 44.8s, output queue size 49
progress 50% @chr9:12000001, elapsed 1.7s, est remaining 1.7s, peak mem 81MB, user 2.3s, sys 49.5s, output queue size 63
progress 55% @chr10:117000001, elapsed 1.9s, est remaining 1.5s, peak mem 81MB, user 2.5s, sys 54.5s, output queue size 53
progress 60% @chr12:12000001, elapsed 2.1s, est remaining 1.4s, peak mem 81MB, user 2.7s, sys 59.5s, output queue size 55
progress 65% @chr13:38000001, elapsed 2.2s, est remaining 1.2s, peak mem 81MB, user 2.9s, sys 64.3s, output queue size 62
progress 70% @chr14:83000001, elapsed 2.4s, est remaining 1.0s, peak mem 81MB, user 3.1s, sys 68.8s, output queue size 70
progress 75% @chr16:37000001, elapsed 2.5s, est remaining 0.8s, peak mem 81MB, user 3.2s, sys 73.7s, output queue size 70
progress 80% @chr18:22000001, elapsed 2.7s, est remaining 0.7s, peak mem 81MB, user 3.4s, sys 78.8s, output queue size 71
progress 85% @chr20:45000001, elapsed 2.9s, est remaining 0.5s, peak mem 81MB, user 3.6s, sys 83.8s, output queue size 74
progress 90% @chrX:44000001, elapsed 3.1s, est remaining 0.3s, peak mem 90MB, user 4.2s, sys 89.0s, output queue size 114
progress 95% @chrX:147000001, elapsed 3.3s, est remaining 0.2s, peak mem 96MB, user 4.5s, sys 92.9s, output queue size 271
progress 100% @chr21:41000001, elapsed 3.7s, est remaining 0.0s, peak mem 156MB, user 5.4s, sys 100.5s, 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 0.023 user 0.015 sys 0.045 real
VcfLineRecordHelper::sort: 25 calls 0.000 user 0.000 sys 0.000 real
advance: 3219322 calls 1.341 user 22.270 sys 23.336 real
calc: 3219322 calls 0.460 user 16.443 sys 15.519 real
done: 1 calls 0.023 user 0.015 sys 0.045 real
execute: 1 calls 0.002 user 0.001 sys 3.675 real
fetch: 3219322 calls 0.444 user 17.331 sys 14.803 real
idle: 78 calls 0.015 user 0.016 sys 38.198 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 204627968 mem 5.606 user 101.057 sys 4.744 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 0.1s, est remaining 2.0s, peak mem 177MB, user 0.2s, sys 2.5s, output queue size 6
progress 10% @chr2:79000001, elapsed 0.2s, est remaining 1.7s, peak mem 207MB, user 0.4s, sys 4.8s, output queue size 7
progress 15% @chr2:236000001, elapsed 0.3s, est remaining 1.5s, peak mem 225MB, user 0.7s, sys 7.1s, output queue size 23
progress 20% @chr3:155000001, elapsed 0.3s, est remaining 1.4s, peak mem 243MB, user 0.9s, sys 9.4s, output queue size 14
progress 25% @chr4:117000001, elapsed 0.4s, est remaining 1.3s, peak mem 258MB, user 1.1s, sys 11.7s, output queue size 16
progress 30% @chr5:88000001, elapsed 0.5s, est remaining 1.2s, peak mem 267MB, user 1.3s, sys 14.0s, output queue size 18
progress 35% @chr6:64000001, elapsed 0.6s, est remaining 1.1s, peak mem 273MB, user 1.5s, sys 16.2s, output queue size 9
progress 40% @chr7:56000001, elapsed 0.7s, est remaining 1.0s, peak mem 273MB, user 1.8s, sys 18.4s, output queue size 20
progress 45% @chr8:57000001, elapsed 0.8s, est remaining 0.9s, peak mem 273MB, user 2.0s, sys 20.8s, output queue size 12
progress 50% @chr9:75000001, elapsed 0.8s, est remaining 0.8s, peak mem 273MB, user 2.2s, sys 23.1s, output queue size 16
progress 55% @chr10:97000001, elapsed 0.9s, est remaining 0.7s, peak mem 276MB, user 2.4s, sys 25.3s, output queue size 17
progress 60% @chr11:123000001, elapsed 1.0s, est remaining 0.7s, peak mem 276MB, user 2.6s, sys 27.6s, output queue size 20
progress 65% @chr13:17000001, elapsed 1.1s, est remaining 0.6s, peak mem 276MB, user 2.8s, sys 30.0s, output queue size 19
progress 70% @chr14:62000001, elapsed 1.2s, est remaining 0.5s, peak mem 279MB, user 3.0s, sys 32.3s, output queue size 13
progress 75% @chr16:15000001, elapsed 1.2s, est remaining 0.4s, peak mem 279MB, user 3.2s, sys 34.6s, output queue size 23
progress 80% @chr18:1000001, elapsed 1.3s, est remaining 0.3s, peak mem 279MB, user 3.5s, sys 37.0s, output queue size 14
progress 85% @chr19:54000001, elapsed 1.5s, est remaining 0.3s, peak mem 285MB, user 3.8s, sys 41.2s, output queue size 27
progress 90% @chrX:47000001, elapsed 1.7s, est remaining 0.2s, peak mem 492MB, user 6.8s, sys 43.9s, output queue size 114
progress 95% @chrY:42000001, elapsed 2.0s, est remaining 0.1s, peak mem 498MB, user 10.2s, sys 48.6s, output queue size 240
progress 100% @chr21:41000001, elapsed 3.0s, est remaining 0.0s, peak mem 513MB, user 12.9s, sys 54.9s, 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 0.011 user 0.022 sys 0.053 real
MateInfoByVcf::load: 28282 calls 4.294 user 0.966 sys 4.039 real
MateInfoByVcf::parse_events: 28282 calls 4.240 user 0.842 sys 3.806 real
advance: 3219322 calls 1.330 user 6.559 sys 8.441 real
calc: 3219322 calls 4.117 user 20.121 sys 24.515 real
done: 1 calls 0.000 user 0.000 sys 0.004 real
exec_no_coor: 1 calls 0.000 user 0.007 sys 0.003 real
execute: 1 calls 0.004 user 0.005 sys 3.053 real
fetch: 3219323 calls 0.347 user 6.072 sys 7.213 real
find_pairEnds: 28282 calls 0.172 user 0.061 sys 0.369 real
idle: 1034 calls 0.094 user 0.121 sys 54.686 real
init: 1 calls 0.000 user 0.000 sys 0.006 real
markDup: 28282 calls 0.824 user 0.172 sys 1.404 real
vcfadvance: 28282 calls 0.022 user 0.076 sys 0.074 real
write: 3219323 calls 2.147 user 6.858 sys 8.755 real
overall: 538075136 mem 13.587 user 56.302 sys 4.079 real