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% @chr1:161000001, elapsed 0.3s, est remaining 5.8s, peak mem 266MB, user 0.5s, sys 8.1s, output queue size 2
progress 10% @chr2:74000001, elapsed 0.6s, est remaining 5.0s, peak mem 434MB, user 1.0s, sys 15.5s, output queue size 2
progress 15% @chr2:223000001, elapsed 0.8s, est remaining 4.7s, peak mem 587MB, user 1.6s, sys 23.0s, output queue size 12
progress 20% @chr3:149000001, elapsed 1.1s, est remaining 4.3s, peak mem 680MB, user 2.1s, sys 30.4s, output queue size 4
progress 25% @chr4:120000001, elapsed 1.3s, est remaining 4.0s, peak mem 764MB, user 2.5s, sys 38.0s, output queue size 7
progress 30% @chr5:86000001, elapsed 1.6s, est remaining 3.8s, peak mem 800MB, user 2.9s, sys 45.9s, output queue size 5
progress 35% @chr6:66000001, elapsed 1.9s, est remaining 3.5s, peak mem 854MB, user 3.4s, sys 53.4s, output queue size 2
progress 40% @chr7:54000001, elapsed 2.1s, est remaining 3.2s, peak mem 905MB, user 3.9s, sys 61.3s, output queue size 1
progress 45% @chr8:67000001, elapsed 2.4s, est remaining 3.0s, peak mem 1043MB, user 4.4s, sys 69.3s, output queue size 4
progress 50% @chr9:71000001, elapsed 2.7s, est remaining 2.7s, peak mem 1163MB, user 4.8s, sys 77.5s, output queue size 11
progress 55% @chr10:94000001, elapsed 3.0s, est remaining 2.4s, peak mem 1223MB, user 5.3s, sys 85.2s, output queue size 1
progress 60% @chr11:122000001, elapsed 3.2s, est remaining 2.2s, peak mem 1313MB, user 5.8s, sys 93.3s, output queue size 4
progress 65% @chr13:14000001, elapsed 3.5s, est remaining 1.9s, peak mem 1364MB, user 6.2s, sys 101.6s, output queue size 1
progress 70% @chr14:62000001, elapsed 3.8s, est remaining 1.6s, peak mem 1412MB, user 6.6s, sys 109.2s, output queue size 11
progress 75% @chr16:10000001, elapsed 4.0s, est remaining 1.3s, peak mem 1466MB, user 7.0s, sys 117.2s, output queue size 18
progress 80% @chr17:82000001, elapsed 4.3s, est remaining 1.1s, peak mem 1493MB, user 7.3s, sys 125.0s, output queue size 6
progress 85% @chr20:21000001, elapsed 4.6s, est remaining 0.8s, peak mem 1568MB, user 7.7s, sys 132.9s, output queue size 1
progress 90% @chrX:39000001, elapsed 5.1s, est remaining 0.6s, peak mem 2693MB, user 12.4s, sys 137.9s, output queue size 114
progress 95% @chrY:40000001, elapsed 5.4s, est remaining 0.3s, peak mem 2714MB, user 15.9s, sys 142.2s, output queue size 276
progress 100% @chr21:41000001, elapsed 7.8s, est remaining 0.0s, peak mem 2735MB, user 30.0s, sys 147.8s, 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 384
algo: QualCal ReadWriter
license: sentieon:QualCal=31 sentieon:ReadWriter=31
input file size: 50813903
output file size: 81484549
reads: 1001320
contig: 3367 intervals 3217346917 bases
ReadQualCal::clearEPSVecOne: 8 calls 0.004 user 0.009 sys 0.027 real
ReadQualCal::delayed_init: 1 calls 0.004 user 0.001 sys 0.020 real
ReadQualCal::init: 1 calls 0.010 user 0.000 sys 0.006 real
advance: 3219322 calls 1.783 user 21.681 sys 20.179 real
done: 1 calls 0.292 user 0.586 sys 0.882 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.000 user 0.001 sys 7.864 real
fetch: 3219322 calls 0.377 user 20.054 sys 12.458 real
fetch_reads: 3219322 calls 0.490 user 21.207 sys 12.678 real
fetch_ref: 11263 calls 0.024 user 0.063 sys 0.081 real
fetch_vcf: 11263 calls 1.201 user 0.171 sys 1.553 real
idle: 1744 calls 1.194 user 0.404 sys 118.853 real
init: 1 calls 0.004 user 0.008 sys 0.026 real
update: 11451 calls 7.937 user 2.485 sys 11.111 real
write: 3219322 calls 11.180 user 20.322 sys 29.002 real
overall: 2867884032 mem 34.417 user 149.634 sys 10.136 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: 000a06d1
  features: 1f8bfbff fffab20b
  extended: f1bf27eb 1b407f7e
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 31 max 384
algo: QualCal
license: sentieon:QualCal=31
ReadQualCal::init: 2 calls 0.020 user 0.000 sys 0.025 real
done: 1 calls 0.050 user 0.000 sys 0.055 real
idle: 61 calls 0.003 user 0.000 sys 31.420 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 81944576 mem 0.076 user 0.038 sys 1.054 real