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% @chr1:153000001, elapsed 0.1s, est remaining 2.2s, peak mem 292MB, user 0.2s, sys 2.7s, output queue size 14
progress 10% @chr2:70000001, elapsed 0.2s, est remaining 1.8s, peak mem 426MB, user 0.5s, sys 5.2s, output queue size 41
progress 15% @chr2:227000001, elapsed 0.3s, est remaining 1.7s, peak mem 621MB, user 0.7s, sys 7.8s, output queue size 8
progress 20% @chr3:145000001, elapsed 0.4s, est remaining 1.5s, peak mem 721MB, user 1.0s, sys 10.2s, output queue size 9
progress 25% @chr4:107000001, elapsed 0.5s, est remaining 1.4s, peak mem 811MB, user 1.2s, sys 12.6s, output queue size 8
progress 30% @chr5:105000001, elapsed 0.6s, est remaining 1.3s, peak mem 834MB, user 1.4s, sys 15.1s, output queue size 8
progress 35% @chr6:56000001, elapsed 0.6s, est remaining 1.2s, peak mem 879MB, user 1.7s, sys 17.5s, output queue size 9
progress 40% @chr7:48000001, elapsed 0.7s, est remaining 1.1s, peak mem 925MB, user 1.8s, sys 20.0s, output queue size 20
progress 45% @chr8:49000001, elapsed 0.8s, est remaining 1.0s, peak mem 1051MB, user 2.0s, sys 22.5s, output queue size 65
progress 50% @chr9:65000001, elapsed 0.9s, est remaining 0.9s, peak mem 1141MB, user 2.3s, sys 24.9s, output queue size 8
progress 55% @chr10:85000001, elapsed 1.0s, est remaining 0.8s, peak mem 1197MB, user 2.6s, sys 27.3s, output queue size 10
progress 60% @chr11:113000001, elapsed 1.1s, est remaining 0.7s, peak mem 1273MB, user 2.8s, sys 29.7s, output queue size 10
progress 65% @chr13:25000001, elapsed 1.2s, est remaining 0.6s, peak mem 1302MB, user 3.1s, sys 32.1s, output queue size 8
progress 70% @chr14:52000001, elapsed 1.2s, est remaining 0.5s, peak mem 1345MB, user 3.3s, sys 34.4s, output queue size 16
progress 75% @chr16:25000001, elapsed 1.3s, est remaining 0.4s, peak mem 1365MB, user 3.5s, sys 36.9s, output queue size 10
progress 80% @chr18:11000001, elapsed 1.4s, est remaining 0.4s, peak mem 1374MB, user 3.7s, sys 39.2s, output queue size 9
progress 85% @chr20:14000001, elapsed 1.5s, est remaining 0.3s, peak mem 1467MB, user 4.0s, sys 41.6s, output queue size 25
progress 90% @chrX:45000001, elapsed 1.8s, est remaining 0.2s, peak mem 2799MB, user 7.3s, sys 42.9s, output queue size 114
progress 95% @chrY:40000001, elapsed 1.9s, est remaining 0.1s, peak mem 2817MB, user 9.3s, sys 43.7s, output queue size 276
progress 100% @chr21:41000001, elapsed 4.7s, est remaining 0.0s, peak mem 2842MB, user 24.2s, sys 44.9s, 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: 50813905
output file size: 81484552
reads: 1001320
contig: 3367 intervals 3217346917 bases
ReadQualCal::clearEPSVecOne: 8 calls 0.004 user 0.004 sys 0.014 real
ReadQualCal::delayed_init: 1 calls 0.005 user 0.001 sys 0.026 real
ReadQualCal::init: 1 calls 0.000 user 0.000 sys 0.006 real
advance: 3219322 calls 1.580 user 5.847 sys 7.081 real
done: 1 calls 0.310 user 0.355 sys 0.669 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.006 user 0.001 sys 4.733 real
fetch: 3219322 calls 0.202 user 5.310 sys 5.611 real
fetch_reads: 3219322 calls 0.265 user 5.247 sys 5.704 real
fetch_ref: 11263 calls 0.033 user 0.022 sys 0.044 real
fetch_vcf: 11263 calls 1.095 user 0.021 sys 1.270 real
idle: 2545 calls 1.581 user 0.370 sys 118.002 real
init: 1 calls 0.005 user 0.001 sys 0.032 real
update: 11451 calls 6.333 user 1.187 sys 8.225 real
write: 3219322 calls 10.114 user 5.636 sys 15.575 real
overall: 2980298752 mem 29.161 user 45.987 sys 6.584 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 0.029 user 0.001 sys 0.023 real
done: 1 calls 0.039 user 0.011 sys 0.053 real
idle: 61 calls 0.002 user 0.000 sys 31.346 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 82067456 mem 0.041 user 0.064 sys 1.060 real