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% @chr1:163000001, elapsed 0.1s, est remaining 2.1s, peak mem 272MB, user 0.2s, sys 2.5s, output queue size 8
progress 10% @chr2:74000001, elapsed 0.2s, est remaining 1.7s, peak mem 431MB, user 0.5s, sys 4.9s, output queue size 15
progress 15% @chr2:237000001, elapsed 0.3s, est remaining 1.6s, peak mem 578MB, user 0.8s, sys 7.2s, output queue size 19
progress 20% @chr3:155000001, elapsed 0.4s, est remaining 1.5s, peak mem 674MB, user 1.0s, sys 9.6s, output queue size 5
progress 25% @chr4:116000001, elapsed 0.4s, est remaining 1.3s, peak mem 752MB, user 1.2s, sys 11.9s, output queue size 9
progress 30% @chr5:87000001, elapsed 0.5s, est remaining 1.2s, peak mem 770MB, user 1.4s, sys 14.2s, output queue size 12
progress 35% @chr6:66000001, elapsed 0.6s, est remaining 1.1s, peak mem 821MB, user 1.6s, sys 16.6s, output queue size 19
progress 40% @chr7:55000001, elapsed 0.7s, est remaining 1.0s, peak mem 872MB, user 1.9s, sys 19.0s, output queue size 12
progress 45% @chr8:40000001, elapsed 0.8s, est remaining 1.0s, peak mem 1019MB, user 2.1s, sys 21.4s, output queue size 65
progress 50% @chr9:74000001, elapsed 0.9s, est remaining 0.9s, peak mem 1106MB, user 2.3s, sys 23.8s, output queue size 13
progress 55% @chr10:69000001, elapsed 0.9s, est remaining 0.8s, peak mem 1166MB, user 2.6s, sys 26.1s, output queue size 26
progress 60% @chr11:123000001, elapsed 1.0s, est remaining 0.7s, peak mem 1232MB, user 2.8s, sys 28.5s, output queue size 26
progress 65% @chr13:9000001, elapsed 1.2s, est remaining 0.6s, peak mem 1316MB, user 3.1s, sys 31.6s, output queue size 31
progress 70% @chr14:51000001, elapsed 1.4s, est remaining 0.6s, peak mem 1382MB, user 3.4s, sys 37.2s, output queue size 18
progress 75% @chr16:40000001, elapsed 1.5s, est remaining 0.5s, peak mem 1421MB, user 3.8s, sys 42.8s, output queue size 24
progress 80% @chr18:25000001, elapsed 1.7s, est remaining 0.4s, peak mem 1460MB, user 4.1s, sys 48.7s, output queue size 14
progress 85% @chr20:44000001, elapsed 2.0s, est remaining 0.4s, peak mem 1607MB, user 4.5s, sys 55.4s, output queue size 28
progress 90% @chrX:45000001, elapsed 2.4s, est remaining 0.3s, peak mem 2759MB, user 7.5s, sys 58.8s, output queue size 114
progress 95% @chrY:46000001, elapsed 2.6s, est remaining 0.1s, peak mem 2786MB, user 10.3s, sys 60.2s, output queue size 276
progress 100% @chr21:41000001, elapsed 5.4s, est remaining 0.0s, peak mem 2804MB, user 25.3s, sys 63.5s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  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: 50813895
output file size: 81484542
reads: 1001320
contig: 3367 intervals 3217346917 bases
ReadQualCal::clearEPSVecOne: 8 calls 0.000 user 0.000 sys 0.012 real
ReadQualCal::delayed_init: 1 calls 0.003 user 0.000 sys 0.033 real
ReadQualCal::init: 1 calls 0.000 user 0.000 sys 0.006 real
advance: 3219322 calls 1.668 user 7.901 sys 9.523 real
done: 1 calls 0.257 user 0.252 sys 0.512 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.003 user 0.000 sys 5.411 real
fetch: 3219322 calls 0.208 user 7.710 sys 7.912 real
fetch_reads: 3219322 calls 0.325 user 7.165 sys 7.991 real
fetch_ref: 11263 calls 0.034 user 0.025 sys 0.050 real
fetch_vcf: 11263 calls 1.291 user 0.028 sys 1.282 real
idle: 2247 calls 1.413 user 0.289 sys 103.035 real
init: 1 calls 0.007 user 0.000 sys 0.039 real
update: 11451 calls 6.663 user 1.295 sys 8.787 real
write: 3219322 calls 10.483 user 7.745 sys 18.459 real
overall: 2940346368 mem 30.080 user 64.567 sys 6.754 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: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  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 0.029 user 0.001 sys 0.024 real
done: 1 calls 0.039 user 0.011 sys 0.053 real
idle: 61 calls 0.002 user 0.000 sys 31.425 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 81944576 mem 0.071 user 0.035 sys 1.064 real