cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i HCC1395_BL.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info HCC1395_BL.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:134000001, elapsed 0.1s, est remaining 1.3s, peak mem 81MB, user 0.3s, sys 1.3s, output queue size 27
progress 10% @chr2:73000001, elapsed 0.1s, est remaining 1.2s, peak mem 81MB, user 0.4s, sys 3.2s, output queue size 17
progress 15% @chr2:232000001, elapsed 0.2s, est remaining 1.1s, peak mem 81MB, user 0.5s, sys 4.9s, output queue size 7
progress 20% @chr3:155000001, elapsed 0.3s, est remaining 1.0s, peak mem 81MB, user 0.8s, sys 6.6s, output queue size 18
progress 25% @chr4:116000001, elapsed 0.3s, est remaining 0.9s, peak mem 81MB, user 0.9s, sys 8.3s, output queue size 7
progress 30% @chr5:87000001, elapsed 0.4s, est remaining 0.9s, peak mem 81MB, user 1.1s, sys 10.0s, output queue size 23
progress 35% @chr6:66000001, elapsed 0.4s, est remaining 0.8s, peak mem 81MB, user 1.2s, sys 11.8s, output queue size 17
progress 40% @chr7:57000001, elapsed 0.5s, est remaining 0.7s, peak mem 81MB, user 1.4s, sys 13.5s, output queue size 21
progress 45% @chr8:58000001, elapsed 0.6s, est remaining 0.7s, peak mem 81MB, user 1.5s, sys 15.2s, output queue size 19
progress 50% @chr9:73000001, elapsed 0.6s, est remaining 0.6s, peak mem 81MB, user 1.7s, sys 17.0s, output queue size 13
progress 55% @chr10:96000001, elapsed 0.7s, est remaining 0.6s, peak mem 81MB, user 1.8s, sys 18.8s, output queue size 4
progress 60% @chr11:123000001, elapsed 0.7s, est remaining 0.5s, peak mem 81MB, user 1.9s, sys 20.6s, output queue size 5
progress 65% @chr13:15000001, elapsed 0.8s, est remaining 0.4s, peak mem 81MB, user 2.1s, sys 22.4s, output queue size 23
progress 70% @chr14:62000001, elapsed 0.9s, est remaining 0.4s, peak mem 81MB, user 2.2s, sys 24.2s, output queue size 15
progress 75% @chr16:13000001, elapsed 0.9s, est remaining 0.3s, peak mem 81MB, user 2.4s, sys 26.0s, output queue size 18
progress 80% @chr18:1, elapsed 1.0s, est remaining 0.2s, peak mem 81MB, user 2.5s, sys 27.8s, output queue size 9
progress 85% @chr20:23000001, elapsed 1.1s, est remaining 0.2s, peak mem 81MB, user 2.6s, sys 29.7s, output queue size 16
progress 90% @chrX:31000001, elapsed 1.2s, est remaining 0.1s, peak mem 123MB, user 3.2s, sys 31.1s, output queue size 114
progress 95% @chrY:33000001, elapsed 1.2s, est remaining 0.1s, peak mem 154MB, user 3.5s, sys 33.2s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.5s, est remaining 0.0s, peak mem 191MB, user 4.3s, sys 35.9s, 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: 50409481
reads: 1001089
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.030 user 0.010 sys 0.051 real
VcfLineRecordHelper::sort: 30 calls 0.000 user 0.000 sys 0.000 real
advance: 3219322 calls 1.425 user 6.760 sys 8.900 real
calc: 3219322 calls 0.302 user 5.536 sys 6.152 real
done: 1 calls 0.030 user 0.010 sys 0.051 real
execute: 1 calls 0.003 user 0.002 sys 1.490 real
fetch: 3219322 calls 0.492 user 6.388 sys 6.110 real
idle: 78 calls 0.015 user 0.013 sys 36.071 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 251170816 mem 4.449 user 36.405 sys 2.551 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i HCC1395_BL.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info HCC1395_BL.md.score --metrics HCC1395_BL.md.metrics HCC1395_BL.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 192MB, user 0.3s, sys 2.4s, output queue size 9
progress 10% @chr2:74000001, elapsed 0.2s, est remaining 1.7s, peak mem 219MB, user 0.5s, sys 4.7s, output queue size 14
progress 15% @chr2:235000001, elapsed 0.3s, est remaining 1.5s, peak mem 240MB, user 0.6s, sys 7.0s, output queue size 2
progress 20% @chr3:153000001, elapsed 0.3s, est remaining 1.4s, peak mem 247MB, user 0.9s, sys 9.3s, output queue size 10
progress 25% @chr4:94000001, elapsed 0.4s, est remaining 1.3s, peak mem 256MB, user 1.1s, sys 11.5s, output queue size 21
progress 30% @chr5:87000001, elapsed 0.5s, est remaining 1.2s, peak mem 264MB, user 1.3s, sys 13.8s, output queue size 17
progress 35% @chr6:64000001, elapsed 0.6s, est remaining 1.1s, peak mem 273MB, user 1.5s, sys 16.0s, output queue size 1
progress 40% @chr7:56000001, elapsed 0.7s, est remaining 1.0s, peak mem 277MB, user 1.7s, sys 18.3s, output queue size 12
progress 45% @chr8:60000001, elapsed 0.7s, est remaining 0.9s, peak mem 280MB, user 1.8s, sys 20.6s, output queue size 15
progress 50% @chr9:74000001, elapsed 0.8s, est remaining 0.8s, peak mem 288MB, user 1.9s, sys 22.9s, output queue size 18
progress 55% @chr10:95000001, elapsed 0.9s, est remaining 0.7s, peak mem 291MB, user 2.2s, sys 25.0s, output queue size 1
progress 60% @chr11:121000001, elapsed 1.0s, est remaining 0.7s, peak mem 294MB, user 2.4s, sys 27.3s, output queue size 3
progress 65% @chr13:17000001, elapsed 1.1s, est remaining 0.6s, peak mem 294MB, user 2.7s, sys 29.5s, output queue size 2
progress 70% @chr14:63000001, elapsed 1.1s, est remaining 0.5s, peak mem 295MB, user 2.9s, sys 31.9s, output queue size 5
progress 75% @chr16:16000001, elapsed 1.2s, est remaining 0.4s, peak mem 298MB, user 3.1s, sys 34.3s, output queue size 18
progress 80% @chr17:60000001, elapsed 1.3s, est remaining 0.3s, peak mem 298MB, user 3.3s, sys 36.7s, output queue size 24
progress 85% @chr20:23000001, elapsed 1.4s, est remaining 0.2s, peak mem 301MB, user 3.5s, sys 39.2s, output queue size 2
progress 90% @chrX:41000001, elapsed 1.6s, est remaining 0.2s, peak mem 529MB, user 5.3s, sys 40.5s, output queue size 114
progress 95% @chrY:35000001, elapsed 1.7s, est remaining 0.1s, peak mem 552MB, user 6.9s, sys 41.8s, output queue size 276
progress 100% @chr21:41000001, elapsed 2.8s, est remaining 0.0s, peak mem 573MB, user 12.3s, sys 43.7s, output queue size 3664
library HCC1395_BL:
chimeric_paired 873
duped 146553
duped_chimeric_paired 2
duped_paired 146548
duped_unpaired 5
optical_dup 4835
paired 999974
reads 1001089
secondary_supplementary 1097
unmapped 9
unpaired 9
optical dup clusters 4702, maxdup 7, total optical dup pairs 4835
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: 50409481
reads: 1001089
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 25531 calls 0.004 user 0.036 sys 0.022 real
MateInfoByVcf::load: 25531 calls 4.074 user 0.593 sys 3.923 real
MateInfoByVcf::parse_events: 25531 calls 4.041 user 0.527 sys 3.819 real
advance: 3219322 calls 0.990 user 5.334 sys 6.922 real
calc: 3219322 calls 4.127 user 16.223 sys 20.342 real
done: 1 calls 0.000 user 0.000 sys 0.003 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.000 user 0.001 sys 2.843 real
fetch: 3219322 calls 0.331 user 4.831 sys 5.828 real
find_pairEnds: 25531 calls 0.193 user 0.013 sys 0.331 real
idle: 1798 calls 0.132 user 0.143 sys 59.991 real
init: 1 calls 0.000 user 0.000 sys 0.006 real
markDup: 25531 calls 0.851 user 0.081 sys 1.283 real
vcfadvance: 25531 calls 0.019 user 0.077 sys 0.030 real
write: 3219322 calls 2.241 user 5.419 sys 7.451 real
overall: 601120768 mem 12.952 user 44.753 sys 3.867 real