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% @chr1:166000001, elapsed 0.1s, est remaining 1.4s, peak mem 81MB, user 0.3s, sys 1.4s, output queue size 19
progress 10% @chr2:81000001, elapsed 0.1s, est remaining 1.2s, peak mem 81MB, user 0.5s, sys 3.2s, output queue size 35
progress 15% @chr2:236000001, elapsed 0.2s, est remaining 1.1s, peak mem 81MB, user 0.8s, sys 4.9s, output queue size 11
progress 20% @chr3:156000001, elapsed 0.3s, est remaining 1.1s, peak mem 81MB, user 1.0s, sys 6.6s, output queue size 6
progress 25% @chr4:119000001, elapsed 0.3s, est remaining 1.0s, peak mem 81MB, user 1.1s, sys 8.4s, output queue size 15
progress 30% @chr5:88000001, elapsed 0.4s, est remaining 0.9s, peak mem 81MB, user 1.4s, sys 10.1s, output queue size 19
progress 35% @chr6:66000001, elapsed 0.5s, est remaining 0.8s, peak mem 81MB, user 1.7s, sys 11.9s, output queue size 35
progress 40% @chr7:56000001, elapsed 0.5s, est remaining 0.8s, peak mem 81MB, user 1.9s, sys 13.5s, output queue size 18
progress 45% @chr8:40000001, elapsed 0.6s, est remaining 0.7s, peak mem 81MB, user 2.1s, sys 15.5s, output queue size 17
progress 50% @chr9:75000001, elapsed 0.6s, est remaining 0.6s, peak mem 81MB, user 2.3s, sys 17.3s, output queue size 19
progress 55% @chr10:96000001, elapsed 0.7s, est remaining 0.6s, peak mem 81MB, user 2.5s, sys 19.0s, output queue size 2
progress 60% @chr11:123000001, elapsed 0.8s, est remaining 0.5s, peak mem 81MB, user 2.6s, sys 20.9s, output queue size 24
progress 65% @chr13:13000001, elapsed 0.8s, est remaining 0.5s, peak mem 81MB, user 2.8s, sys 22.7s, output queue size 2
progress 70% @chr14:60000001, elapsed 0.9s, est remaining 0.4s, peak mem 81MB, user 2.9s, sys 24.6s, output queue size 1
progress 75% @chr16:14000001, elapsed 1.0s, est remaining 0.3s, peak mem 81MB, user 3.1s, sys 26.5s, output queue size 5
progress 80% @chr18:1, elapsed 1.0s, est remaining 0.3s, peak mem 81MB, user 3.3s, sys 28.4s, output queue size 15
progress 85% @chr20:24000001, elapsed 1.1s, est remaining 0.2s, peak mem 81MB, user 3.4s, sys 30.1s, output queue size 13
progress 90% @chrX:29000001, elapsed 1.2s, est remaining 0.1s, peak mem 126MB, user 4.0s, sys 31.9s, output queue size 114
progress 95% @chrY:30000001, elapsed 1.3s, est remaining 0.1s, peak mem 160MB, user 4.3s, sys 34.3s, output queue size 271
progress 100% @chr21:41000001, elapsed 1.5s, est remaining 0.0s, peak mem 167MB, user 4.9s, sys 36.7s, 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 192
algo: LocusCollector
license: sentieon:Dedup=31
input file size: 49121347
reads: 1001838
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.051 user 0.007 sys 0.063 real
VcfLineRecordHelper::sort: 30 calls 0.000 user 0.000 sys 0.000 real
advance: 3219322 calls 1.240 user 6.795 sys 8.507 real
calc: 3219322 calls 0.435 user 6.272 sys 6.396 real
done: 1 calls 0.051 user 0.007 sys 0.063 real
execute: 1 calls 0.002 user 0.002 sys 1.526 real
fetch: 3219322 calls 0.347 user 5.662 sys 6.376 real
idle: 73 calls 0.003 user 0.007 sys 35.840 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 226443264 mem 5.119 user 37.271 sys 2.594 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% @chr1:165000001, elapsed 0.1s, est remaining 2.0s, peak mem 205MB, user 0.3s, sys 2.3s, output queue size 11
progress 10% @chr2:72000001, elapsed 0.2s, est remaining 1.7s, peak mem 232MB, user 0.6s, sys 4.5s, output queue size 16
progress 15% @chr2:228000001, elapsed 0.3s, est remaining 1.5s, peak mem 259MB, user 0.8s, sys 6.7s, output queue size 20
progress 20% @chr3:152000001, elapsed 0.3s, est remaining 1.4s, peak mem 270MB, user 1.0s, sys 9.1s, output queue size 12
progress 25% @chr4:114000001, elapsed 0.4s, est remaining 1.3s, peak mem 279MB, user 1.3s, sys 11.2s, output queue size 17
progress 30% @chr5:86000001, elapsed 0.5s, est remaining 1.2s, peak mem 285MB, user 1.5s, sys 13.5s, output queue size 23
progress 35% @chr6:65000001, elapsed 0.6s, est remaining 1.1s, peak mem 291MB, user 1.6s, sys 15.9s, output queue size 2
progress 40% @chr7:55000001, elapsed 0.7s, est remaining 1.0s, peak mem 294MB, user 1.8s, sys 18.3s, output queue size 17
progress 45% @chr8:57000001, elapsed 0.8s, est remaining 0.9s, peak mem 295MB, user 2.0s, sys 20.4s, output queue size 17
progress 50% @chr9:75000001, elapsed 0.8s, est remaining 0.8s, peak mem 295MB, user 2.3s, sys 22.6s, output queue size 15
progress 55% @chr10:95000001, elapsed 0.9s, est remaining 0.7s, peak mem 298MB, user 2.5s, sys 25.0s, output queue size 19
progress 60% @chr11:120000001, elapsed 1.0s, est remaining 0.7s, peak mem 300MB, user 2.7s, sys 27.2s, output queue size 26
progress 65% @chr13:15000001, elapsed 1.1s, est remaining 0.6s, peak mem 303MB, user 2.9s, sys 29.6s, output queue size 13
progress 70% @chr14:27000001, elapsed 1.2s, est remaining 0.5s, peak mem 304MB, user 3.3s, sys 31.8s, output queue size 34
progress 75% @chr16:16000001, elapsed 1.2s, est remaining 0.4s, peak mem 307MB, user 3.5s, sys 34.0s, output queue size 31
progress 80% @chr18:1000001, elapsed 1.3s, est remaining 0.3s, peak mem 307MB, user 3.6s, sys 36.4s, output queue size 9
progress 85% @chr20:22000001, elapsed 1.4s, est remaining 0.3s, peak mem 309MB, user 3.9s, sys 39.1s, output queue size 17
progress 90% @chrX:40000001, elapsed 1.6s, est remaining 0.2s, peak mem 495MB, user 6.0s, sys 40.5s, output queue size 114
progress 95% @chrY:27000001, elapsed 1.7s, est remaining 0.1s, peak mem 525MB, user 7.7s, sys 41.6s, output queue size 271
progress 100% @chr21:41000001, elapsed 2.7s, est remaining 0.0s, peak mem 546MB, user 12.4s, sys 44.1s, 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 6.12.88
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 192
algo: Dedup
license: sentieon:Dedup=31
input file size: 49121347
reads: 1001838
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 28282 calls 0.000 user 0.000 sys 0.027 real
MateInfoByVcf::load: 28282 calls 4.176 user 0.831 sys 3.794 real
MateInfoByVcf::parse_events: 28282 calls 4.132 user 0.802 sys 3.677 real
advance: 3219322 calls 1.078 user 5.345 sys 7.277 real
calc: 3219322 calls 3.921 user 15.948 sys 20.505 real
done: 1 calls 0.000 user 0.000 sys 0.004 real
exec_no_coor: 1 calls 0.000 user 0.002 sys 0.000 real
execute: 1 calls 0.002 user 0.004 sys 2.808 real
fetch: 3219323 calls 0.472 user 5.322 sys 5.913 real
find_pairEnds: 28282 calls 0.218 user 0.035 sys 0.352 real
idle: 1607 calls 0.221 user 0.237 sys 57.619 real
init: 1 calls 0.000 user 0.010 sys 0.006 real
markDup: 28282 calls 0.806 user 0.103 sys 1.341 real
vcfadvance: 28282 calls 0.015 user 0.063 sys 0.059 real
write: 3219323 calls 2.134 user 5.382 sys 7.428 real
overall: 573521920 mem 13.285 user 45.489 sys 3.826 real