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% @chr1:163000001, elapsed 0.1s, est remaining 1.3s, peak mem 81MB, user 0.1s, sys 1.4s, output queue size 14
progress 10% @chr2:76000001, elapsed 0.1s, est remaining 1.2s, peak mem 81MB, user 0.3s, sys 3.1s, output queue size 14
progress 15% @chr2:235000001, elapsed 0.2s, est remaining 1.1s, peak mem 81MB, user 0.4s, sys 4.9s, output queue size 20
progress 20% @chr3:154000001, elapsed 0.2s, est remaining 1.0s, peak mem 81MB, user 0.5s, sys 6.5s, output queue size 17
progress 25% @chr4:115000001, elapsed 0.3s, est remaining 0.9s, peak mem 81MB, user 0.6s, sys 8.3s, output queue size 17
progress 30% @chr5:86000001, elapsed 0.4s, est remaining 0.9s, peak mem 81MB, user 0.7s, sys 10.1s, output queue size 19
progress 35% @chr6:65000001, elapsed 0.4s, est remaining 0.8s, peak mem 81MB, user 0.9s, sys 11.7s, output queue size 13
progress 40% @chr7:56000001, elapsed 0.5s, est remaining 0.7s, peak mem 81MB, user 1.1s, sys 13.4s, output queue size 23
progress 45% @chr8:58000001, elapsed 0.5s, est remaining 0.7s, peak mem 81MB, user 1.2s, sys 15.1s, output queue size 17
progress 50% @chr9:74000001, elapsed 0.6s, est remaining 0.6s, peak mem 81MB, user 1.4s, sys 16.8s, output queue size 21
progress 55% @chr10:97000001, elapsed 0.7s, est remaining 0.5s, peak mem 81MB, user 1.5s, sys 18.5s, output queue size 22
progress 60% @chr11:124000001, elapsed 0.7s, est remaining 0.5s, peak mem 81MB, user 1.6s, sys 20.3s, output queue size 17
progress 65% @chr13:16000001, elapsed 0.8s, est remaining 0.4s, peak mem 81MB, user 1.7s, sys 22.1s, output queue size 13
progress 70% @chr14:61000001, elapsed 0.9s, est remaining 0.4s, peak mem 81MB, user 1.8s, sys 23.9s, output queue size 10
progress 75% @chr16:13000001, elapsed 0.9s, est remaining 0.3s, peak mem 81MB, user 1.9s, sys 25.7s, output queue size 5
progress 80% @chr18:1000001, elapsed 1.0s, est remaining 0.2s, peak mem 81MB, user 2.0s, sys 27.5s, output queue size 5
progress 85% @chr20:23000001, elapsed 1.0s, est remaining 0.2s, peak mem 81MB, user 2.1s, sys 29.3s, output queue size 5
progress 90% @chrX:32000001, elapsed 1.1s, est remaining 0.1s, peak mem 130MB, user 2.7s, sys 30.8s, output queue size 114
progress 95% @chrY:32000001, elapsed 1.2s, est remaining 0.1s, peak mem 159MB, user 3.0s, sys 32.9s, output queue size 271
progress 100% @chr21:41000001, elapsed 1.5s, est remaining 0.0s, peak mem 172MB, user 3.6s, sys 35.3s, 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: 49121348
reads: 1001838
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.026 user 0.011 sys 0.043 real
VcfLineRecordHelper::sort: 31 calls 0.000 user 0.000 sys 0.000 real
advance: 3219322 calls 1.402 user 6.901 sys 8.524 real
calc: 3219322 calls 0.344 user 6.199 sys 6.112 real
done: 1 calls 0.026 user 0.011 sys 0.043 real
execute: 1 calls 0.002 user 0.005 sys 1.453 real
fetch: 3219322 calls 0.347 user 5.794 sys 5.971 real
idle: 62 calls 0.003 user 0.009 sys 36.027 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 222121984 mem 3.736 user 35.853 sys 2.514 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% @chr1:163000001, elapsed 0.1s, est remaining 2.0s, peak mem 202MB, user 0.3s, sys 2.4s, output queue size 7
progress 10% @chr2:77000001, elapsed 0.2s, est remaining 1.7s, peak mem 237MB, user 0.5s, sys 4.8s, output queue size 23
progress 15% @chr2:237000001, elapsed 0.3s, est remaining 1.5s, peak mem 259MB, user 0.7s, sys 7.0s, output queue size 14
progress 20% @chr3:153000001, elapsed 0.4s, est remaining 1.4s, peak mem 268MB, user 0.9s, sys 9.3s, output queue size 11
progress 25% @chr4:115000001, elapsed 0.4s, est remaining 1.3s, peak mem 274MB, user 1.1s, sys 11.6s, output queue size 1
progress 30% @chr5:86000001, elapsed 0.5s, est remaining 1.2s, peak mem 279MB, user 1.4s, sys 14.0s, output queue size 10
progress 35% @chr6:65000001, elapsed 0.6s, est remaining 1.1s, peak mem 288MB, user 1.6s, sys 16.2s, output queue size 15
progress 40% @chr7:33000001, elapsed 0.7s, est remaining 1.0s, peak mem 295MB, user 1.8s, sys 18.5s, output queue size 22
progress 45% @chr8:56000001, elapsed 0.8s, est remaining 0.9s, peak mem 298MB, user 2.0s, sys 20.8s, output queue size 1
progress 50% @chr9:72000001, elapsed 0.8s, est remaining 0.8s, peak mem 300MB, user 2.2s, sys 23.2s, output queue size 1
progress 55% @chr10:95000001, elapsed 0.9s, est remaining 0.8s, peak mem 301MB, user 2.4s, sys 25.5s, output queue size 1
progress 60% @chr11:122000001, elapsed 1.0s, est remaining 0.7s, peak mem 304MB, user 2.5s, sys 27.8s, output queue size 3
progress 65% @chr13:16000001, elapsed 1.1s, est remaining 0.6s, peak mem 307MB, user 2.8s, sys 30.2s, output queue size 9
progress 70% @chr14:59000001, elapsed 1.2s, est remaining 0.5s, peak mem 310MB, user 3.0s, sys 32.5s, output queue size 14
progress 75% @chr16:14000001, elapsed 1.2s, est remaining 0.4s, peak mem 313MB, user 3.2s, sys 34.8s, output queue size 21
progress 80% @chr18:1, elapsed 1.3s, est remaining 0.3s, peak mem 313MB, user 3.5s, sys 37.1s, output queue size 2
progress 85% @chr20:22000001, elapsed 1.4s, est remaining 0.2s, peak mem 315MB, user 3.7s, sys 39.5s, output queue size 13
progress 90% @chrX:42000001, elapsed 1.6s, est remaining 0.2s, peak mem 505MB, user 5.4s, sys 40.7s, output queue size 114
progress 95% @chrY:38000001, elapsed 1.7s, est remaining 0.1s, peak mem 534MB, user 7.5s, sys 41.5s, output queue size 271
progress 100% @chr21:41000001, elapsed 2.8s, est remaining 0.0s, peak mem 553MB, user 12.2s, sys 43.1s, 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 6.12.83
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: 49121348
reads: 1001838
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 28282 calls 0.001 user 0.049 sys 0.025 real
MateInfoByVcf::load: 28282 calls 4.166 user 0.839 sys 3.681 real
MateInfoByVcf::parse_events: 28282 calls 4.132 user 0.741 sys 3.570 real
advance: 3219322 calls 1.189 user 4.999 sys 7.013 real
calc: 3219322 calls 3.753 user 15.919 sys 20.209 real
done: 1 calls 0.000 user 0.000 sys 0.003 real
exec_no_coor: 1 calls 0.000 user 0.006 sys 0.001 real
execute: 1 calls 0.006 user 0.004 sys 2.833 real
fetch: 3219323 calls 0.433 user 4.699 sys 5.719 real
find_pairEnds: 28282 calls 0.196 user 0.011 sys 0.331 real
idle: 1626 calls 0.107 user 0.100 sys 60.326 real
init: 1 calls 0.000 user 0.000 sys 0.006 real
markDup: 28282 calls 0.668 user 0.058 sys 1.236 real
vcfadvance: 28282 calls 0.011 user 0.049 sys 0.033 real
write: 3219323 calls 2.086 user 5.255 sys 7.386 real
overall: 580673536 mem 13.001 user 44.043 sys 3.852 real