cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i Sig_18_Blood.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector --fun score_info Sig_18_Blood.md.score
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:158000001, elapsed 0.1s, est remaining 2.7s, peak mem 78MB, user 0.2s, sys 3.5s, output queue size 8
progress 10% @chr2:72000001, elapsed 0.3s, est remaining 2.4s, peak mem 78MB, user 0.3s, sys 7.3s, output queue size 1
progress 15% @chr2:230000001, elapsed 0.4s, est remaining 2.2s, peak mem 78MB, user 0.4s, sys 11.2s, output queue size 5
progress 20% @chr3:152000001, elapsed 0.5s, est remaining 2.1s, peak mem 78MB, user 0.5s, sys 15.1s, output queue size 1
progress 25% @chr4:114000001, elapsed 0.7s, est remaining 2.0s, peak mem 78MB, user 0.7s, sys 18.9s, output queue size 1
progress 30% @chr5:84000001, elapsed 0.8s, est remaining 1.8s, peak mem 78MB, user 0.8s, sys 22.8s, output queue size 4
progress 35% @chr6:64000001, elapsed 0.9s, est remaining 1.7s, peak mem 78MB, user 0.9s, sys 26.6s, output queue size 1
progress 40% @chr7:54000001, elapsed 1.0s, est remaining 1.6s, peak mem 78MB, user 1.0s, sys 30.5s, output queue size 1
progress 45% @chr8:46000001, elapsed 1.2s, est remaining 1.4s, peak mem 78MB, user 1.1s, sys 34.6s, output queue size 11
progress 50% @chr9:99000001, elapsed 1.4s, est remaining 1.4s, peak mem 78MB, user 1.3s, sys 40.6s, output queue size 11
progress 55% @chr10:119000001, elapsed 1.6s, est remaining 1.3s, peak mem 78MB, user 1.5s, sys 47.1s, output queue size 21
progress 60% @chr12:5000001, elapsed 1.8s, est remaining 1.2s, peak mem 78MB, user 1.7s, sys 53.6s, output queue size 12
progress 65% @chr13:4000001, elapsed 2.0s, est remaining 1.1s, peak mem 78MB, user 1.9s, sys 60.1s, output queue size 11
progress 70% @chr14:85000001, elapsed 2.2s, est remaining 1.0s, peak mem 78MB, user 2.1s, sys 66.0s, output queue size 14
progress 75% @chr16:14000001, elapsed 2.4s, est remaining 0.8s, peak mem 78MB, user 2.4s, sys 72.0s, output queue size 9
progress 80% @chr18:13000001, elapsed 2.6s, est remaining 0.7s, peak mem 78MB, user 2.6s, sys 78.1s, output queue size 19
progress 85% @chr19:50000001, elapsed 2.8s, est remaining 0.5s, peak mem 78MB, user 2.9s, sys 84.2s, output queue size 31
progress 90% @chrX:25000001, elapsed 3.1s, est remaining 0.3s, peak mem 87MB, user 3.5s, sys 89.1s, output queue size 114
progress 95% @chrY:39000001, elapsed 3.3s, est remaining 0.2s, peak mem 135MB, user 3.9s, sys 95.8s, output queue size 271
progress 100% @chr21:41000001, elapsed 3.7s, est remaining 0.0s, peak mem 163MB, user 4.8s, sys 104.1s, 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 384
algo: LocusCollector
license: sentieon:Dedup=31
input file size: 51298916
reads: 1001133
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.033 user 0.011 sys 0.048 real
VcfLineRecordHelper::sort: 31 calls 0.000 user 0.000 sys 0.000 real
advance: 3219322 calls 1.529 user 20.946 sys 23.054 real
calc: 3219322 calls 0.371 user 16.940 sys 17.224 real
done: 1 calls 0.033 user 0.011 sys 0.048 real
execute: 1 calls 0.001 user 0.000 sys 3.712 real
fetch: 3219322 calls 0.423 user 16.274 sys 17.212 real
idle: 73 calls 0.005 user 0.020 sys 36.424 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 215912448 mem 4.893 user 104.734 sys 4.779 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -i Sig_18_Blood.bam -r Homo_sapiens_assembly38.fasta --algo Dedup --score_info Sig_18_Blood.md.score --metrics Sig_18_Blood.md.metrics Sig_18_Blood.md.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:166000001, elapsed 0.1s, est remaining 2.1s, peak mem 162MB, user 0.5s, sys 2.4s, output queue size 13
progress 10% @chr2:73000001, elapsed 0.2s, est remaining 1.7s, peak mem 189MB, user 0.9s, sys 4.7s, output queue size 8
progress 15% @chr2:206000001, elapsed 0.3s, est remaining 1.6s, peak mem 216MB, user 1.3s, sys 6.9s, output queue size 29
progress 20% @chr3:153000001, elapsed 0.4s, est remaining 1.4s, peak mem 225MB, user 1.6s, sys 9.1s, output queue size 4
progress 25% @chr4:115000001, elapsed 0.4s, est remaining 1.3s, peak mem 246MB, user 2.0s, sys 11.2s, output queue size 12
progress 30% @chr5:88000001, elapsed 0.5s, est remaining 1.2s, peak mem 258MB, user 2.3s, sys 13.5s, output queue size 16
progress 35% @chr6:68000001, elapsed 0.6s, est remaining 1.1s, peak mem 264MB, user 2.6s, sys 15.7s, output queue size 18
progress 40% @chr7:57000001, elapsed 0.7s, est remaining 1.0s, peak mem 267MB, user 2.9s, sys 17.9s, output queue size 25
progress 45% @chr8:58000001, elapsed 0.8s, est remaining 0.9s, peak mem 267MB, user 3.2s, sys 20.1s, output queue size 13
progress 50% @chr9:73000001, elapsed 0.9s, est remaining 0.9s, peak mem 273MB, user 3.5s, sys 22.3s, output queue size 22
progress 55% @chr10:95000001, elapsed 0.9s, est remaining 0.8s, peak mem 276MB, user 3.8s, sys 24.6s, output queue size 17
progress 60% @chr11:117000001, elapsed 1.1s, est remaining 0.7s, peak mem 276MB, user 4.2s, sys 28.3s, output queue size 27
progress 65% @chr13:10000001, elapsed 1.3s, est remaining 0.7s, peak mem 279MB, user 4.5s, sys 33.5s, output queue size 24
progress 70% @chr14:46000001, elapsed 1.4s, est remaining 0.6s, peak mem 279MB, user 4.9s, sys 38.5s, output queue size 15
progress 75% @chr16:9000001, elapsed 1.6s, est remaining 0.5s, peak mem 279MB, user 5.3s, sys 43.7s, output queue size 28
progress 80% @chr18:18000001, elapsed 1.9s, est remaining 0.5s, peak mem 282MB, user 5.9s, sys 50.5s, output queue size 11
progress 85% @chr20:19000001, elapsed 2.1s, est remaining 0.4s, peak mem 288MB, user 6.3s, sys 58.2s, output queue size 13
progress 90% @chrX:23000001, elapsed 2.5s, est remaining 0.3s, peak mem 489MB, user 9.7s, sys 63.1s, output queue size 114
progress 95% @chrY:44000001, elapsed 2.8s, est remaining 0.1s, peak mem 501MB, user 13.6s, sys 69.3s, output queue size 240
progress 100% @chr21:41000001, elapsed 3.9s, est remaining 0.0s, peak mem 519MB, user 16.6s, sys 77.1s, output queue size 3664
library Sig_18_Blood:
chimeric_paired 1027
duped 115575
duped_chimeric_paired 2
duped_paired 115574
duped_unpaired 1
optical_dup 5956
paired 999968
reads 1001133
secondary_supplementary 1151
unmapped 7
unpaired 7
optical dup clusters 5759, maxdup 3, total optical dup pairs 5956
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 384
algo: Dedup
license: sentieon:Dedup=31
input file size: 51298916
reads: 1001133
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 26026 calls 0.002 user 0.016 sys 0.065 real
MateInfoByVcf::load: 26026 calls 4.636 user 1.229 sys 4.762 real
MateInfoByVcf::parse_events: 26026 calls 4.546 user 1.139 sys 4.459 real
advance: 3219322 calls 1.340 user 9.785 sys 11.794 real
calc: 3219322 calls 5.633 user 28.471 sys 34.208 real
done: 1 calls 0.000 user 0.000 sys 0.005 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.004 user 0.004 sys 3.978 real
fetch: 3219322 calls 0.556 user 9.325 sys 9.972 real
find_pairEnds: 26026 calls 0.220 user 0.023 sys 0.423 real
idle: 1037 calls 0.036 user 0.171 sys 56.904 real
init: 1 calls 0.010 user 0.000 sys 0.006 real
markDup: 26026 calls 0.795 user 0.176 sys 1.652 real
vcfadvance: 26026 calls 0.015 user 0.125 sys 0.123 real
write: 3219322 calls 2.824 user 9.175 sys 12.169 real
overall: 544366592 mem 17.136 user 78.723 sys 5.004 real