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% @chr1:165000001, elapsed 0.1s, est remaining 2.2s, peak mem 294MB, user 0.3s, sys 2.7s, output queue size 18
progress 10% @chr2:79000001, elapsed 0.2s, est remaining 1.9s, peak mem 468MB, user 0.6s, sys 5.3s, output queue size 12
progress 15% @chr2:237000001, elapsed 0.3s, est remaining 1.7s, peak mem 603MB, user 0.9s, sys 7.9s, output queue size 12
progress 20% @chr3:155000001, elapsed 0.4s, est remaining 1.5s, peak mem 693MB, user 1.1s, sys 10.4s, output queue size 10
progress 25% @chr4:117000001, elapsed 0.5s, est remaining 1.4s, peak mem 809MB, user 1.3s, sys 12.8s, output queue size 15
progress 30% @chr5:87000001, elapsed 0.6s, est remaining 1.3s, peak mem 837MB, user 1.6s, sys 15.3s, output queue size 24
progress 35% @chr6:65000001, elapsed 0.7s, est remaining 1.2s, peak mem 908MB, user 1.8s, sys 17.8s, output queue size 15
progress 40% @chr7:33000001, elapsed 0.7s, est remaining 1.1s, peak mem 954MB, user 2.0s, sys 20.3s, output queue size 22
progress 45% @chr8:56000001, elapsed 0.8s, est remaining 1.0s, peak mem 1085MB, user 2.4s, sys 22.6s, output queue size 1
progress 50% @chr9:74000001, elapsed 0.9s, est remaining 0.9s, peak mem 1197MB, user 2.7s, sys 25.1s, output queue size 11
progress 55% @chr10:95000001, elapsed 1.0s, est remaining 0.8s, peak mem 1247MB, user 2.9s, sys 27.6s, output queue size 2
progress 60% @chr11:125000001, elapsed 1.1s, est remaining 0.7s, peak mem 1335MB, user 3.1s, sys 30.3s, output queue size 10
progress 65% @chr13:15000001, elapsed 1.2s, est remaining 0.6s, peak mem 1424MB, user 3.4s, sys 33.0s, output queue size 22
progress 70% @chr14:63000001, elapsed 1.3s, est remaining 0.6s, peak mem 1482MB, user 3.7s, sys 35.6s, output queue size 11
progress 75% @chr16:6000001, elapsed 1.4s, est remaining 0.5s, peak mem 1524MB, user 3.8s, sys 38.3s, output queue size 7
progress 80% @chr18:1, elapsed 1.5s, est remaining 0.4s, peak mem 1545MB, user 4.1s, sys 40.9s, output queue size 3
progress 85% @chr20:24000001, elapsed 1.6s, est remaining 0.3s, peak mem 1670MB, user 4.3s, sys 43.7s, output queue size 9
progress 90% @chrX:47000001, elapsed 1.9s, est remaining 0.2s, peak mem 2793MB, user 7.2s, sys 45.1s, output queue size 114
progress 95% @chrY:38000001, elapsed 2.0s, est remaining 0.1s, peak mem 2814MB, user 9.8s, sys 45.8s, output queue size 276
progress 100% @chr21:41000001, elapsed 4.7s, est remaining 0.0s, peak mem 2839MB, user 23.9s, sys 47.2s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
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: 50815355
output file size: 81727455
reads: 1001320
contig: 3367 intervals 3217346917 bases
ReadQualCal::clearEPSVecOne: 8 calls 0.000 user 0.000 sys 0.024 real
ReadQualCal::delayed_init: 1 calls 0.001 user 0.000 sys 0.025 real
ReadQualCal::init: 1 calls 0.000 user 0.000 sys 0.006 real
advance: 3219322 calls 1.605 user 5.756 sys 7.494 real
done: 1 calls 0.340 user 0.198 sys 0.540 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.003 user 0.000 sys 4.802 real
fetch: 3219322 calls 0.279 user 5.800 sys 5.861 real
fetch_reads: 3219322 calls 0.361 user 5.368 sys 5.934 real
fetch_ref: 11263 calls 0.070 user 0.017 sys 0.045 real
fetch_vcf: 11263 calls 1.265 user 0.050 sys 1.276 real
idle: 2449 calls 1.773 user 0.267 sys 119.710 real
init: 1 calls 0.006 user 0.000 sys 0.031 real
update: 11451 calls 5.821 user 1.222 sys 7.912 real
write: 3219322 calls 10.052 user 5.826 sys 15.881 real
overall: 2977046528 mem 29.756 user 47.981 sys 6.715 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 6.12.83
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 0.028 user 0.002 sys 0.024 real
done: 1 calls 0.057 user 0.003 sys 0.054 real
idle: 61 calls 0.002 user 0.000 sys 31.307 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 82051072 mem 0.079 user 0.025 sys 1.055 real