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% @chr1:166000001, elapsed 0.2s, est remaining 3.9s, peak mem 254MB, user 0.4s, sys 5.1s, output queue size 11
progress 10% @chr2:78000001, elapsed 0.4s, est remaining 3.3s, peak mem 443MB, user 0.7s, sys 9.8s, output queue size 15
progress 15% @chr2:234000001, elapsed 0.5s, est remaining 3.0s, peak mem 596MB, user 1.3s, sys 14.3s, output queue size 13
progress 20% @chr3:158000001, elapsed 0.7s, est remaining 2.8s, peak mem 689MB, user 1.8s, sys 18.7s, output queue size 17
progress 25% @chr4:121000001, elapsed 0.8s, est remaining 2.5s, peak mem 776MB, user 2.3s, sys 23.1s, output queue size 13
progress 30% @chr5:93000001, elapsed 1.0s, est remaining 2.3s, peak mem 830MB, user 2.8s, sys 27.4s, output queue size 17
progress 35% @chr6:69000001, elapsed 1.2s, est remaining 2.3s, peak mem 884MB, user 3.4s, sys 33.1s, output queue size 29
progress 40% @chr7:57000001, elapsed 1.5s, est remaining 2.2s, peak mem 932MB, user 4.0s, sys 40.1s, output queue size 41
progress 45% @chr8:11000001, elapsed 1.8s, est remaining 2.2s, peak mem 1049MB, user 4.6s, sys 48.9s, output queue size 65
progress 50% @chr9:93000001, elapsed 2.1s, est remaining 2.1s, peak mem 1127MB, user 5.2s, sys 57.4s, output queue size 32
progress 55% @chr10:54000001, elapsed 2.3s, est remaining 1.9s, peak mem 1175MB, user 5.6s, sys 65.6s, output queue size 41
progress 60% @chr11:116000001, elapsed 2.6s, est remaining 1.7s, peak mem 1271MB, user 6.1s, sys 73.6s, output queue size 19
progress 65% @chr13:17000001, elapsed 2.9s, est remaining 1.6s, peak mem 1343MB, user 6.6s, sys 82.2s, output queue size 27
progress 70% @chr14:62000001, elapsed 3.2s, est remaining 1.4s, peak mem 1403MB, user 7.0s, sys 90.4s, output queue size 19
progress 75% @chr16:11000001, elapsed 3.5s, est remaining 1.2s, peak mem 1433MB, user 7.4s, sys 99.0s, output queue size 19
progress 80% @chr17:74000001, elapsed 3.7s, est remaining 0.9s, peak mem 1451MB, user 7.8s, sys 106.8s, output queue size 14
progress 85% @chr20:25000001, elapsed 4.0s, est remaining 0.7s, peak mem 1580MB, user 8.3s, sys 114.7s, output queue size 13
progress 90% @chrX:42000001, elapsed 4.5s, est remaining 0.5s, peak mem 2744MB, user 12.5s, sys 118.7s, output queue size 114
progress 95% @chrY:42000001, elapsed 4.8s, est remaining 0.3s, peak mem 2774MB, user 16.2s, sys 122.6s, output queue size 276
progress 100% @chr21:41000001, elapsed 7.4s, est remaining 0.0s, peak mem 2792MB, user 30.2s, sys 127.6s, 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: 50813900
output file size: 81484548
reads: 1001320
contig: 3367 intervals 3217346917 bases
ReadQualCal::clearEPSVecOne: 8 calls 0.000 user 0.000 sys 0.017 real
ReadQualCal::delayed_init: 1 calls 0.004 user 0.000 sys 0.022 real
ReadQualCal::init: 1 calls 0.010 user 0.000 sys 0.006 real
advance: 3219322 calls 1.699 user 16.107 sys 17.885 real
done: 1 calls 0.309 user 0.415 sys 0.728 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.003 user 0.000 sys 7.497 real
fetch: 3219322 calls 0.322 user 15.214 sys 15.482 real
fetch_reads: 3219322 calls 0.328 user 14.915 sys 15.571 real
fetch_ref: 11263 calls 0.032 user 0.059 sys 0.077 real
fetch_vcf: 11263 calls 1.105 user 0.141 sys 1.531 real
idle: 1937 calls 1.059 user 0.468 sys 120.683 real
init: 1 calls 0.009 user 0.000 sys 0.028 real
update: 11451 calls 6.941 user 1.797 sys 9.351 real
write: 3219322 calls 11.878 user 15.731 sys 27.771 real
overall: 2928136192 mem 33.786 user 129.089 sys 9.515 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 0.010 user 0.000 sys 0.025 real
done: 1 calls 0.041 user 0.009 sys 0.054 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: 81854464 mem 0.096 user 0.010 sys 1.057 real