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% @chr1:174000001, elapsed 0.3s, est remaining 6.6s, peak mem 260MB, user 0.6s, sys 9.0s, output queue size 6
progress 10% @chr2:88000001, elapsed 0.6s, est remaining 5.6s, peak mem 395MB, user 1.0s, sys 17.1s, output queue size 41
progress 15% @chr3:4000001, elapsed 0.9s, est remaining 5.1s, peak mem 575MB, user 1.6s, sys 25.3s, output queue size 22
progress 20% @chr3:171000001, elapsed 1.2s, est remaining 4.8s, peak mem 668MB, user 2.0s, sys 33.6s, output queue size 17
progress 25% @chr4:128000001, elapsed 1.5s, est remaining 4.4s, peak mem 785MB, user 2.4s, sys 41.8s, output queue size 18
progress 30% @chr5:97000001, elapsed 1.7s, est remaining 4.1s, peak mem 818MB, user 2.7s, sys 49.9s, output queue size 17
progress 35% @chr6:78000001, elapsed 2.0s, est remaining 3.7s, peak mem 848MB, user 3.0s, sys 57.7s, output queue size 31
progress 40% @chr7:66000001, elapsed 2.3s, est remaining 3.4s, peak mem 881MB, user 3.4s, sys 65.7s, output queue size 20
progress 45% @chr8:70000001, elapsed 2.6s, est remaining 3.1s, peak mem 998MB, user 3.9s, sys 73.4s, output queue size 36
progress 50% @chr9:87000001, elapsed 2.8s, est remaining 2.8s, peak mem 1112MB, user 4.4s, sys 82.0s, output queue size 26
progress 55% @chr10:111000001, elapsed 3.1s, est remaining 2.5s, peak mem 1157MB, user 4.7s, sys 90.0s, output queue size 50
progress 60% @chr11:94000001, elapsed 3.4s, est remaining 2.3s, peak mem 1238MB, user 5.3s, sys 99.0s, output queue size 29
progress 65% @chr12:128000001, elapsed 3.7s, est remaining 2.0s, peak mem 1295MB, user 5.7s, sys 108.3s, output queue size 21
progress 70% @chr14:38000001, elapsed 4.0s, est remaining 1.7s, peak mem 1346MB, user 6.2s, sys 117.3s, output queue size 23
progress 75% @chr16:25000001, elapsed 4.3s, est remaining 1.4s, peak mem 1403MB, user 6.5s, sys 126.4s, output queue size 24
progress 80% @chr18:16000001, elapsed 4.7s, est remaining 1.2s, peak mem 1430MB, user 6.9s, sys 135.5s, output queue size 22
progress 85% @chr20:5000001, elapsed 5.0s, est remaining 0.9s, peak mem 1475MB, user 7.3s, sys 144.8s, output queue size 25
progress 90% @chrX:37000001, elapsed 5.5s, est remaining 0.6s, peak mem 2720MB, user 11.3s, sys 149.4s, output queue size 114
progress 95% @chrY:13000001, elapsed 5.7s, est remaining 0.3s, peak mem 2747MB, user 15.1s, sys 153.6s, output queue size 276
progress 100% @chr21:41000001, elapsed 8.3s, est remaining 0.0s, peak mem 2759MB, user 28.8s, sys 159.6s, 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: 50813900
output file size: 81484549
reads: 1001320
contig: 3367 intervals 3217346917 bases
ReadQualCal::clearEPSVecOne: 8 calls 0.006 user 0.040 sys 0.049 real
ReadQualCal::delayed_init: 1 calls 0.005 user 0.002 sys 0.025 real
ReadQualCal::init: 1 calls 0.003 user 0.007 sys 0.006 real
advance: 3219322 calls 2.061 user 19.720 sys 21.969 real
done: 1 calls 0.267 user 0.579 sys 0.852 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.007 user 0.003 sys 8.324 real
fetch: 3219322 calls 0.383 user 18.668 sys 19.341 real
fetch_reads: 3219322 calls 0.461 user 19.585 sys 19.436 real
fetch_ref: 11263 calls 0.032 user 0.046 sys 0.083 real
fetch_vcf: 11263 calls 1.200 user 0.191 sys 1.519 real
idle: 1805 calls 1.215 user 0.466 sys 121.242 real
init: 1 calls 0.005 user 0.002 sys 0.032 real
update: 11451 calls 7.400 user 1.236 sys 9.692 real
write: 3219322 calls 11.256 user 20.549 sys 31.306 real
overall: 2893070336 mem 33.623 user 161.741 sys 10.600 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 0.017 user 0.013 sys 0.024 real
done: 1 calls 0.043 user 0.017 sys 0.054 real
idle: 61 calls 0.002 user 0.000 sys 31.221 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 81928192 mem 0.051 user 0.062 sys 1.049 real