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% @chr1:164000001, elapsed 0.1s, est remaining 2.7s, peak mem 278MB, user 0.3s, sys 3.6s, output queue size 14
progress 10% @chr2:75000001, elapsed 0.3s, est remaining 2.3s, peak mem 425MB, user 0.6s, sys 6.9s, output queue size 1
progress 15% @chr2:236000001, elapsed 0.4s, est remaining 2.1s, peak mem 590MB, user 1.0s, sys 9.9s, output queue size 14
progress 20% @chr3:136000001, elapsed 0.5s, est remaining 2.2s, peak mem 677MB, user 1.3s, sys 14.7s, output queue size 17
progress 25% @chr4:141000001, elapsed 0.7s, est remaining 2.2s, peak mem 767MB, user 1.8s, sys 20.2s, output queue size 9
progress 30% @chr5:79000001, elapsed 0.9s, est remaining 2.2s, peak mem 812MB, user 2.2s, sys 26.0s, output queue size 7
progress 35% @chr6:53000001, elapsed 1.1s, est remaining 2.1s, peak mem 857MB, user 2.4s, sys 31.8s, output queue size 12
progress 40% @chr7:44000001, elapsed 1.4s, est remaining 2.1s, peak mem 896MB, user 2.8s, sys 38.7s, output queue size 20
progress 45% @chr8:47000001, elapsed 1.6s, est remaining 2.0s, peak mem 1049MB, user 3.2s, sys 46.3s, output queue size 65
progress 50% @chr9:63000001, elapsed 1.9s, est remaining 1.9s, peak mem 1154MB, user 3.8s, sys 53.9s, output queue size 10
progress 55% @chr10:111000001, elapsed 2.2s, est remaining 1.8s, peak mem 1199MB, user 4.1s, sys 61.5s, output queue size 8
progress 60% @chr12:1000001, elapsed 2.4s, est remaining 1.6s, peak mem 1268MB, user 4.4s, sys 69.3s, output queue size 4
progress 65% @chr13:15000001, elapsed 2.7s, est remaining 1.4s, peak mem 1334MB, user 4.7s, sys 77.2s, output queue size 5
progress 70% @chr14:61000001, elapsed 2.9s, est remaining 1.3s, peak mem 1394MB, user 5.0s, sys 85.0s, output queue size 1
progress 75% @chr16:11000001, elapsed 3.2s, est remaining 1.1s, peak mem 1418MB, user 5.4s, sys 92.6s, output queue size 2
progress 80% @chr18:3000001, elapsed 3.5s, est remaining 0.9s, peak mem 1424MB, user 5.7s, sys 100.2s, output queue size 5
progress 85% @chr20:8000001, elapsed 3.7s, est remaining 0.7s, peak mem 1532MB, user 6.1s, sys 107.7s, output queue size 14
progress 90% @chr21:6000001, elapsed 4.2s, est remaining 0.5s, peak mem 2741MB, user 10.3s, sys 111.6s, output queue size 114
progress 95% @chrY:39000001, elapsed 4.4s, est remaining 0.2s, peak mem 2768MB, user 14.1s, sys 115.2s, output queue size 276
progress 100% @chr21:41000001, elapsed 6.9s, est remaining 0.0s, peak mem 2784MB, user 27.9s, sys 119.7s, 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: 50813902
output file size: 81484552
reads: 1001320
contig: 3367 intervals 3217346917 bases
ReadQualCal::clearEPSVecOne: 8 calls 0.000 user 0.000 sys 0.025 real
ReadQualCal::delayed_init: 1 calls 0.010 user 0.000 sys 0.021 real
ReadQualCal::init: 1 calls 0.009 user 0.001 sys 0.006 real
advance: 3219322 calls 1.506 user 15.504 sys 16.835 real
done: 1 calls 0.363 user 0.364 sys 0.734 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.007 user 0.001 sys 6.945 real
fetch: 3219322 calls 0.318 user 14.368 sys 14.705 real
fetch_reads: 3219322 calls 0.383 user 14.444 sys 14.820 real
fetch_ref: 11263 calls 0.003 user 0.026 sys 0.071 real
fetch_vcf: 11263 calls 1.305 user 0.095 sys 1.423 real
idle: 1869 calls 1.372 user 0.418 sys 115.907 real
init: 1 calls 0.010 user 0.000 sys 0.028 real
update: 11451 calls 7.063 user 2.004 sys 9.762 real
write: 3219322 calls 11.428 user 14.718 sys 26.096 real
overall: 2923352064 mem 32.557 user 121.384 sys 9.070 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 0.010 sys 0.025 real
done: 1 calls 0.050 user 0.010 sys 0.055 real
idle: 61 calls 0.002 user 0.000 sys 31.364 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 81944576 mem 0.056 user 0.056 sys 1.056 real