cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -r Homo_sapiens_assembly38.fasta -i HCC1395_tumor.md.bam --read_filter QualCalFilter,table=HCC1395_tumor.table,indel=false --algo QualCal -k dbsnp_146.hg38.vcf.gz -k Mills_and_1000G_gold_standard.indels.hg38.vcf.gz -k Homo_sapiens_assembly38.known_indels.vcf.gz HCC1395_tumor.table.post --algo ReadWriter HCC1395_tumor.recalibrated.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:154000001, elapsed 0.1s, est remaining 2.5s, peak mem 278MB, user 0.3s, sys 3.2s, output queue size 18
progress 10% @chr2:83000001, elapsed 0.2s, est remaining 2.1s, peak mem 425MB, user 0.7s, sys 5.9s, output queue size 41
progress 15% @chr3:2000001, elapsed 0.3s, est remaining 1.9s, peak mem 603MB, user 1.0s, sys 8.8s, output queue size 36
progress 20% @chr3:160000001, elapsed 0.4s, est remaining 1.8s, peak mem 695MB, user 1.4s, sys 11.8s, output queue size 24
progress 25% @chr4:123000001, elapsed 0.5s, est remaining 1.6s, peak mem 798MB, user 1.7s, sys 14.7s, output queue size 18
progress 30% @chr5:96000001, elapsed 0.7s, est remaining 1.5s, peak mem 842MB, user 2.0s, sys 17.6s, output queue size 25
progress 35% @chr6:65000001, elapsed 0.8s, est remaining 1.4s, peak mem 899MB, user 2.2s, sys 20.6s, output queue size 19
progress 40% @chr7:55000001, elapsed 0.9s, est remaining 1.3s, peak mem 942MB, user 2.6s, sys 23.4s, output queue size 15
progress 45% @chr8:54000001, elapsed 1.0s, est remaining 1.2s, peak mem 1049MB, user 2.8s, sys 26.4s, output queue size 14
progress 50% @chr9:63000001, elapsed 1.1s, est remaining 1.1s, peak mem 1160MB, user 3.1s, sys 29.3s, output queue size 19
progress 55% @chr10:98000001, elapsed 1.2s, est remaining 1.0s, peak mem 1200MB, user 3.4s, sys 32.0s, output queue size 12
progress 60% @chr11:122000001, elapsed 1.3s, est remaining 0.8s, peak mem 1281MB, user 3.8s, sys 34.6s, output queue size 16
progress 65% @chr13:7000001, elapsed 1.4s, est remaining 0.7s, peak mem 1341MB, user 4.2s, sys 37.3s, output queue size 9
progress 70% @chr14:62000001, elapsed 1.5s, est remaining 0.6s, peak mem 1382MB, user 4.4s, sys 40.0s, output queue size 11
progress 75% @chr16:22000001, elapsed 1.6s, est remaining 0.5s, peak mem 1428MB, user 4.8s, sys 42.7s, output queue size 7
progress 80% @chr18:1, elapsed 1.7s, est remaining 0.4s, peak mem 1457MB, user 5.2s, sys 45.2s, output queue size 9
progress 85% @chr20:19000001, elapsed 1.8s, est remaining 0.3s, peak mem 1565MB, user 5.5s, sys 47.9s, output queue size 25
progress 90% @chrX:44000001, elapsed 2.2s, est remaining 0.2s, peak mem 2768MB, user 9.4s, sys 49.3s, output queue size 114
progress 95% @chrY:45000001, elapsed 2.3s, est remaining 0.1s, peak mem 2780MB, user 12.4s, sys 49.8s, output queue size 276
progress 100% @chr21:41000001, elapsed 4.6s, est remaining 0.0s, peak mem 2816MB, user 28.7s, sys 51.0s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000c06f2
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: INTEL(R) XEON(R) PLATINUM 8559C
threads: 31 max 192
algo: QualCal ReadWriter
license: sentieon:QualCal=31 sentieon:ReadWriter=31
input file size: 50813904
output file size: 81484554
reads: 1001320
contig: 3367 intervals 3217346917 bases
ReadQualCal::clearEPSVecOne: 8 calls 0.000 user 0.000 sys 0.016 real
ReadQualCal::delayed_init: 1 calls 0.004 user 0.001 sys 0.029 real
ReadQualCal::init: 1 calls 0.010 user 0.000 sys 0.006 real
advance: 3219322 calls 2.039 user 6.180 sys 8.330 real
done: 1 calls 0.388 user 0.325 sys 0.715 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.003 user 0.000 sys 4.614 real
fetch: 3219322 calls 0.298 user 6.455 sys 6.428 real
fetch_reads: 3219322 calls 0.283 user 5.516 sys 6.549 real
fetch_ref: 11263 calls 0.043 user 0.030 sys 0.051 real
fetch_vcf: 11263 calls 1.343 user 0.058 sys 1.599 real
idle: 2591 calls 3.174 user 0.174 sys 83.939 real
init: 1 calls 0.011 user 0.001 sys 0.037 real
update: 11451 calls 8.276 user 1.250 sys 10.206 real
write: 3219322 calls 10.519 user 6.113 sys 16.697 real
overall: 2953089024 mem 37.777 user 51.444 sys 6.003 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 --algo QualCal --plot --before HCC1395_tumor.table --after HCC1395_tumor.table.post HCC1395_tumor.csv
This software is licensed to bgold@natera.com by Sentieon Inc.
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000c06f2
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: INTEL(R) XEON(R) PLATINUM 8559C
threads: 31 max 192
algo: QualCal
license: sentieon:QualCal=31
ReadQualCal::init: 2 calls 0.050 user 0.000 sys 0.045 real
done: 1 calls 0.090 user 0.010 sys 0.097 real
idle: 61 calls 0.001 user 0.000 sys 31.284 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 82075648 mem 0.106 user 0.046 sys 1.060 real