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 0.2s, est remaining 3.1s, peak mem 81MB, user 0.2s, sys 4.0s, output queue size 31
progress 10% @chr2:69000001, elapsed 0.3s, est remaining 2.6s, peak mem 81MB, user 0.4s, sys 7.8s, output queue size 20
progress 15% @chr2:230000001, elapsed 0.4s, est remaining 2.4s, peak mem 81MB, user 0.6s, sys 11.8s, output queue size 14
progress 20% @chr3:149000001, elapsed 0.6s, est remaining 2.2s, peak mem 81MB, user 0.8s, sys 15.5s, output queue size 25
progress 25% @chr4:135000001, elapsed 0.7s, est remaining 2.1s, peak mem 81MB, user 1.0s, sys 19.9s, output queue size 30
progress 30% @chr5:108000001, elapsed 0.9s, est remaining 2.0s, peak mem 81MB, user 1.1s, sys 24.7s, output queue size 21
progress 35% @chr6:86000001, elapsed 1.0s, est remaining 1.9s, peak mem 81MB, user 1.3s, sys 29.3s, output queue size 32
progress 40% @chr7:81000001, elapsed 1.2s, est remaining 1.8s, peak mem 81MB, user 1.5s, sys 33.9s, output queue size 22
progress 45% @chr8:1000001, elapsed 1.3s, est remaining 1.6s, peak mem 81MB, user 1.7s, sys 38.5s, output queue size 56
progress 50% @chr9:65000001, elapsed 1.5s, est remaining 1.5s, peak mem 81MB, user 1.9s, sys 43.2s, output queue size 11
progress 55% @chr10:80000001, elapsed 1.7s, est remaining 1.4s, peak mem 81MB, user 2.1s, sys 48.6s, output queue size 15
progress 60% @chr11:107000001, elapsed 1.8s, est remaining 1.2s, peak mem 81MB, user 2.2s, sys 53.7s, output queue size 16
progress 65% @chr13:36000001, elapsed 2.0s, est remaining 1.1s, peak mem 81MB, user 2.4s, sys 58.6s, output queue size 31
progress 70% @chr14:50000001, elapsed 2.2s, est remaining 0.9s, peak mem 81MB, user 2.5s, sys 63.7s, output queue size 22
progress 75% @chr16:28000001, elapsed 2.3s, est remaining 0.8s, peak mem 81MB, user 2.7s, sys 68.7s, output queue size 9
progress 80% @chr17:81000001, elapsed 2.5s, est remaining 0.6s, peak mem 81MB, user 2.9s, sys 73.5s, output queue size 9
progress 85% @chr20:19000001, elapsed 2.7s, est remaining 0.5s, peak mem 81MB, user 3.2s, sys 78.4s, output queue size 5
progress 90% @chrX:30000001, elapsed 2.9s, est remaining 0.3s, peak mem 96MB, user 3.9s, sys 82.5s, output queue size 114
progress 95% @chrY:10000001, elapsed 3.1s, est remaining 0.2s, peak mem 123MB, user 4.3s, sys 88.0s, output queue size 276
progress 100% @chr21:41000001, elapsed 3.4s, est remaining 0.0s, peak mem 150MB, user 5.2s, sys 95.4s, 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: 49121347
reads: 1001838
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.007 user 0.046 sys 0.057 real
VcfLineRecordHelper::sort: 31 calls 0.000 user 0.000 sys 0.000 real
advance: 3219322 calls 1.472 user 18.939 sys 20.890 real
calc: 3219322 calls 0.405 user 15.510 sys 15.581 real
done: 1 calls 0.007 user 0.046 sys 0.057 real
execute: 1 calls 0.004 user 0.006 sys 3.427 real
fetch: 3219322 calls 0.387 user 15.680 sys 15.551 real
idle: 79 calls 0.002 user 0.014 sys 35.621 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 198328320 mem 5.299 user 96.078 sys 4.495 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% @chr1:147000001, elapsed 0.3s, est remaining 5.4s, peak mem 168MB, user 0.4s, sys 7.3s, output queue size 26
progress 10% @chr2:67000001, elapsed 0.5s, est remaining 4.9s, peak mem 183MB, user 0.7s, sys 14.8s, output queue size 33
progress 15% @chr2:227000001, elapsed 0.8s, est remaining 4.6s, peak mem 204MB, user 1.0s, sys 22.6s, output queue size 19
progress 20% @chr3:172000001, elapsed 1.1s, est remaining 4.3s, peak mem 225MB, user 1.3s, sys 30.5s, output queue size 13
progress 25% @chr4:114000001, elapsed 1.3s, est remaining 4.0s, peak mem 234MB, user 1.6s, sys 38.2s, output queue size 9
progress 30% @chr5:86000001, elapsed 1.6s, est remaining 3.7s, peak mem 243MB, user 1.9s, sys 45.7s, output queue size 17
progress 35% @chr6:61000001, elapsed 1.8s, est remaining 3.4s, peak mem 243MB, user 2.1s, sys 53.1s, output queue size 6
progress 40% @chr7:54000001, elapsed 2.1s, est remaining 3.1s, peak mem 252MB, user 2.5s, sys 60.6s, output queue size 4
progress 45% @chr8:59000001, elapsed 2.3s, est remaining 2.8s, peak mem 252MB, user 2.8s, sys 68.2s, output queue size 1
progress 50% @chr9:81000001, elapsed 2.6s, est remaining 2.6s, peak mem 252MB, user 3.1s, sys 75.3s, output queue size 15
progress 55% @chr10:102000001, elapsed 2.8s, est remaining 2.3s, peak mem 255MB, user 3.4s, sys 82.2s, output queue size 16
progress 60% @chr12:3000001, elapsed 3.0s, est remaining 2.0s, peak mem 255MB, user 3.6s, sys 89.4s, output queue size 26
progress 65% @chr12:119000001, elapsed 3.3s, est remaining 1.8s, peak mem 255MB, user 3.9s, sys 96.3s, output queue size 30
progress 70% @chr14:39000001, elapsed 3.5s, est remaining 1.5s, peak mem 255MB, user 4.2s, sys 102.9s, output queue size 22
progress 75% @chr15:94000001, elapsed 3.7s, est remaining 1.2s, peak mem 255MB, user 4.5s, sys 109.8s, output queue size 21
progress 80% @chr17:68000001, elapsed 4.0s, est remaining 1.0s, peak mem 258MB, user 4.9s, sys 116.9s, output queue size 16
progress 85% @chr20:14000001, elapsed 4.2s, est remaining 0.7s, peak mem 258MB, user 5.2s, sys 124.1s, output queue size 16
progress 90% @chrX:40000001, elapsed 4.6s, est remaining 0.5s, peak mem 432MB, user 8.1s, sys 129.0s, output queue size 114
progress 95% @chrY:35000001, elapsed 4.9s, est remaining 0.3s, peak mem 453MB, user 12.0s, sys 134.9s, output queue size 247
progress 100% @chr21:41000001, elapsed 5.8s, est remaining 0.0s, peak mem 459MB, user 14.9s, sys 141.6s, 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: 49121347
reads: 1001838
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 28282 calls 0.011 user 0.060 sys 0.084 real
MateInfoByVcf::load: 28282 calls 4.300 user 1.753 sys 5.029 real
MateInfoByVcf::parse_events: 28282 calls 4.248 user 1.545 sys 4.664 real
advance: 3219322 calls 1.441 user 18.270 sys 19.898 real
calc: 3219322 calls 4.799 user 52.557 sys 57.785 real
done: 1 calls 0.004 user 0.000 sys 0.004 real
exec_no_coor: 1 calls 0.000 user 0.002 sys 0.001 real
execute: 1 calls 0.008 user 0.003 sys 5.846 real
fetch: 3219323 calls 0.396 user 16.877 sys 17.228 real
find_pairEnds: 28282 calls 0.196 user 0.053 sys 0.419 real
idle: 955 calls 0.084 user 0.070 sys 49.604 real
init: 1 calls 0.000 user 0.000 sys 0.006 real
markDup: 28282 calls 0.945 user 0.300 sys 1.821 real
vcfadvance: 28282 calls 0.019 user 0.174 sys 0.278 real
write: 3219323 calls 2.397 user 17.495 sys 19.792 real
overall: 481452032 mem 15.423 user 142.366 sys 6.840 real