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% @chr1:165000001, elapsed 0.1s, est remaining 1.6s, peak mem 81MB, user 0.1s, sys 1.9s, output queue size 17
progress 10% @chr2:75000001, elapsed 0.2s, est remaining 1.5s, peak mem 81MB, user 0.2s, sys 4.2s, output queue size 2
progress 15% @chr2:237000001, elapsed 0.2s, est remaining 1.4s, peak mem 81MB, user 0.4s, sys 6.5s, output queue size 26
progress 20% @chr3:154000001, elapsed 0.3s, est remaining 1.3s, peak mem 81MB, user 0.5s, sys 8.7s, output queue size 1
progress 25% @chr4:116000001, elapsed 0.4s, est remaining 1.2s, peak mem 81MB, user 0.6s, sys 11.0s, output queue size 13
progress 30% @chr5:86000001, elapsed 0.5s, est remaining 1.1s, peak mem 81MB, user 0.7s, sys 13.3s, output queue size 5
progress 35% @chr6:65000001, elapsed 0.5s, est remaining 1.0s, peak mem 81MB, user 0.8s, sys 15.5s, output queue size 15
progress 40% @chr7:55000001, elapsed 0.6s, est remaining 0.9s, peak mem 81MB, user 1.0s, sys 17.7s, output queue size 4
progress 45% @chr8:57000001, elapsed 0.7s, est remaining 0.9s, peak mem 81MB, user 1.1s, sys 20.0s, output queue size 11
progress 50% @chr9:73000001, elapsed 0.8s, est remaining 0.8s, peak mem 81MB, user 1.3s, sys 22.2s, output queue size 13
progress 55% @chr10:94000001, elapsed 0.9s, est remaining 0.7s, peak mem 81MB, user 1.4s, sys 24.5s, output queue size 14
progress 60% @chr11:123000001, elapsed 0.9s, est remaining 0.6s, peak mem 81MB, user 1.5s, sys 26.8s, output queue size 13
progress 65% @chr13:15000001, elapsed 1.0s, est remaining 0.5s, peak mem 81MB, user 1.7s, sys 29.0s, output queue size 21
progress 70% @chr14:61000001, elapsed 1.1s, est remaining 0.5s, peak mem 81MB, user 1.8s, sys 31.3s, output queue size 3
progress 75% @chr16:13000001, elapsed 1.2s, est remaining 0.4s, peak mem 81MB, user 2.0s, sys 33.4s, output queue size 14
progress 80% @chr17:81000001, elapsed 1.2s, est remaining 0.3s, peak mem 81MB, user 2.2s, sys 35.7s, output queue size 3
progress 85% @chr20:23000001, elapsed 1.3s, est remaining 0.2s, peak mem 81MB, user 2.3s, sys 38.0s, output queue size 18
progress 90% @chrX:28000001, elapsed 1.4s, est remaining 0.2s, peak mem 120MB, user 2.9s, sys 40.2s, output queue size 114
progress 95% @chrY:23000001, elapsed 1.6s, est remaining 0.1s, peak mem 148MB, user 3.1s, sys 43.1s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.8s, est remaining 0.0s, peak mem 189MB, user 3.9s, sys 46.8s, 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: 50406229
reads: 1001089
contig: 3367 intervals 3217346917 bases
LocusCollector::merge: 1 calls 0.034 user 0.003 sys 0.048 real
VcfLineRecordHelper::sort: 31 calls 0.000 user 0.000 sys 0.000 real
advance: 3219322 calls 1.265 user 10.205 sys 10.955 real
calc: 3219322 calls 0.310 user 7.560 sys 7.987 real
done: 1 calls 0.034 user 0.003 sys 0.048 real
execute: 1 calls 0.001 user 0.002 sys 1.839 real
fetch: 3219322 calls 0.334 user 7.149 sys 8.065 real
idle: 73 calls 0.012 user 0.022 sys 36.226 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 239140864 mem 4.078 user 47.504 sys 2.900 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% @chr1:165000001, elapsed 0.1s, est remaining 2.1s, peak mem 192MB, user 0.4s, sys 2.4s, output queue size 13
progress 10% @chr2:48000001, elapsed 0.2s, est remaining 1.8s, peak mem 214MB, user 0.7s, sys 4.8s, output queue size 25
progress 15% @chr2:234000001, elapsed 0.3s, est remaining 1.6s, peak mem 241MB, user 0.9s, sys 7.1s, output queue size 3
progress 20% @chr3:154000001, elapsed 0.4s, est remaining 1.4s, peak mem 256MB, user 1.1s, sys 9.5s, output queue size 17
progress 25% @chr4:118000001, elapsed 0.4s, est remaining 1.3s, peak mem 261MB, user 1.4s, sys 11.8s, output queue size 20
progress 30% @chr5:88000001, elapsed 0.5s, est remaining 1.2s, peak mem 268MB, user 1.6s, sys 14.0s, output queue size 29
progress 35% @chr6:52000001, elapsed 0.6s, est remaining 1.1s, peak mem 271MB, user 1.8s, sys 16.4s, output queue size 20
progress 40% @chr7:57000001, elapsed 0.7s, est remaining 1.0s, peak mem 283MB, user 2.0s, sys 18.7s, output queue size 19
progress 45% @chr8:57000001, elapsed 0.8s, est remaining 0.9s, peak mem 288MB, user 2.2s, sys 21.0s, output queue size 21
progress 50% @chr9:77000001, elapsed 0.9s, est remaining 0.9s, peak mem 292MB, user 2.4s, sys 23.3s, output queue size 28
progress 55% @chr10:98000001, elapsed 0.9s, est remaining 0.8s, peak mem 292MB, user 2.5s, sys 25.7s, output queue size 10
progress 60% @chr11:123000001, elapsed 1.0s, est remaining 0.7s, peak mem 292MB, user 2.8s, sys 28.0s, output queue size 33
progress 65% @chr13:17000001, elapsed 1.1s, est remaining 0.6s, peak mem 292MB, user 3.0s, sys 30.4s, output queue size 31
progress 70% @chr14:62000001, elapsed 1.2s, est remaining 0.5s, peak mem 297MB, user 3.2s, sys 32.8s, output queue size 18
progress 75% @chr16:14000001, elapsed 1.3s, est remaining 0.4s, peak mem 300MB, user 3.4s, sys 35.3s, output queue size 21
progress 80% @chr18:1000001, elapsed 1.4s, est remaining 0.3s, peak mem 300MB, user 3.6s, sys 37.6s, output queue size 26
progress 85% @chr20:26000001, elapsed 1.4s, est remaining 0.3s, peak mem 303MB, user 3.8s, sys 40.0s, output queue size 16
progress 90% @chrX:40000001, elapsed 1.6s, est remaining 0.2s, peak mem 540MB, user 5.8s, sys 41.2s, output queue size 114
progress 95% @chrY:40000001, elapsed 1.7s, est remaining 0.1s, peak mem 550MB, user 7.2s, sys 42.2s, output queue size 276
progress 100% @chr21:41000001, elapsed 2.8s, est remaining 0.0s, peak mem 582MB, user 12.8s, sys 43.9s, 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 6.12.88
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: 50406229
reads: 1001089
contig: 3367 intervals 3217346917 bases
MateInfoByVcf::buildInfoMap: 25531 calls 0.009 user 0.011 sys 0.021 real
MateInfoByVcf::load: 25531 calls 4.274 user 0.601 sys 3.832 real
MateInfoByVcf::parse_events: 25531 calls 4.213 user 0.569 sys 3.729 real
advance: 3219322 calls 1.053 user 5.636 sys 7.097 real
calc: 3219322 calls 4.126 user 15.939 sys 20.617 real
done: 1 calls 0.003 user 0.000 sys 0.003 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.001 user 0.006 sys 2.851 real
fetch: 3219322 calls 0.422 user 4.748 sys 5.932 real
find_pairEnds: 25531 calls 0.195 user 0.010 sys 0.331 real
idle: 1873 calls 0.176 user 0.210 sys 59.445 real
init: 1 calls 0.009 user 0.001 sys 0.006 real
markDup: 25531 calls 0.929 user 0.082 sys 1.281 real
vcfadvance: 25531 calls 0.009 user 0.078 sys 0.027 real
write: 3219322 calls 2.021 user 5.457 sys 7.537 real
overall: 610500608 mem 13.754 user 44.941 sys 3.875 real