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% @chr1:146000001, elapsed 0.2s, est remaining 3.6s, peak mem 294MB, user 0.3s, sys 4.7s, output queue size 15
progress 10% @chr2:59000001, elapsed 0.4s, est remaining 3.2s, peak mem 487MB, user 0.6s, sys 9.2s, output queue size 14
progress 15% @chr2:238000001, elapsed 0.5s, est remaining 2.9s, peak mem 615MB, user 1.0s, sys 13.7s, output queue size 6
progress 20% @chr3:154000001, elapsed 0.7s, est remaining 2.7s, peak mem 715MB, user 1.3s, sys 18.2s, output queue size 14
progress 25% @chr4:115000001, elapsed 0.8s, est remaining 2.5s, peak mem 825MB, user 1.7s, sys 22.9s, output queue size 9
progress 30% @chr5:89000001, elapsed 1.0s, est remaining 2.3s, peak mem 855MB, user 2.0s, sys 27.5s, output queue size 9
progress 35% @chr6:67000001, elapsed 1.1s, est remaining 2.1s, peak mem 901MB, user 2.3s, sys 32.2s, output queue size 4
progress 40% @chr7:41000001, elapsed 1.3s, est remaining 2.0s, peak mem 964MB, user 2.7s, sys 36.9s, output queue size 14
progress 45% @chr8:48000001, elapsed 1.5s, est remaining 1.8s, peak mem 1119MB, user 3.1s, sys 41.5s, output queue size 65
progress 50% @chr9:77000001, elapsed 1.6s, est remaining 1.6s, peak mem 1209MB, user 3.6s, sys 46.0s, output queue size 4
progress 55% @chr10:94000001, elapsed 1.8s, est remaining 1.5s, peak mem 1239MB, user 3.9s, sys 50.9s, output queue size 2
progress 60% @chr11:123000001, elapsed 2.0s, est remaining 1.3s, peak mem 1303MB, user 4.3s, sys 56.1s, output queue size 6
progress 65% @chr13:13000001, elapsed 2.2s, est remaining 1.2s, peak mem 1356MB, user 4.6s, sys 61.4s, output queue size 2
progress 70% @chr14:65000001, elapsed 2.4s, est remaining 1.0s, peak mem 1396MB, user 4.8s, sys 66.8s, output queue size 4
progress 75% @chr16:18000001, elapsed 2.5s, est remaining 0.8s, peak mem 1416MB, user 5.1s, sys 72.1s, output queue size 5
progress 80% @chr18:3000001, elapsed 2.7s, est remaining 0.7s, peak mem 1443MB, user 5.4s, sys 77.2s, output queue size 8
progress 85% @chr20:22000001, elapsed 2.9s, est remaining 0.5s, peak mem 1560MB, user 5.6s, sys 81.8s, output queue size 4
progress 90% @chrX:43000001, elapsed 3.3s, est remaining 0.4s, peak mem 2793MB, user 9.0s, sys 84.0s, output queue size 114
progress 95% @chrY:42000001, elapsed 3.4s, est remaining 0.2s, peak mem 2815MB, user 11.6s, sys 85.2s, output queue size 276
progress 100% @chr21:41000001, elapsed 5.7s, est remaining 0.0s, peak mem 2837MB, user 26.8s, sys 87.2s, 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: QualCal ReadWriter
license: sentieon:QualCal=31 sentieon:ReadWriter=31
input file size: 50813899
output file size: 81484543
reads: 1001320
contig: 3367 intervals 3217346917 bases
ReadQualCal::clearEPSVecOne: 8 calls 0.000 user 0.000 sys 0.018 real
ReadQualCal::delayed_init: 1 calls 0.001 user 0.000 sys 0.018 real
ReadQualCal::init: 1 calls 0.010 user 0.000 sys 0.007 real
advance: 3219322 calls 1.972 user 10.271 sys 12.954 real
done: 1 calls 0.216 user 0.299 sys 0.518 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.007 user 0.000 sys 5.803 real
fetch: 3219322 calls 0.257 user 9.762 sys 11.230 real
fetch_reads: 3219322 calls 0.424 user 10.703 sys 11.325 real
fetch_ref: 11263 calls 0.028 user 0.016 sys 0.054 real
fetch_vcf: 11263 calls 1.535 user 0.044 sys 1.469 real
idle: 2553 calls 2.808 user 0.469 sys 100.497 real
init: 1 calls 0.003 user 0.000 sys 0.025 real
update: 11451 calls 7.393 user 1.075 sys 9.438 real
write: 3219322 calls 9.914 user 10.453 sys 20.684 real
overall: 2975584256 mem 33.702 user 88.457 sys 7.600 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 192
algo: QualCal
license: sentieon:QualCal=31
ReadQualCal::init: 2 calls 0.030 user 0.000 sys 0.024 real
done: 1 calls 0.050 user 0.000 sys 0.053 real
idle: 61 calls 0.002 user 0.000 sys 31.302 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 82075648 mem 0.062 user 0.037 sys 1.051 real