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 2.0s, peak mem 293MB, user 0.3s, sys 2.5s, output queue size 9
progress 10% @chr2:73000001, elapsed 0.2s, est remaining 1.7s, peak mem 446MB, user 0.5s, sys 4.8s, output queue size 12
progress 15% @chr2:235000001, elapsed 0.3s, est remaining 1.5s, peak mem 615MB, user 0.7s, sys 7.2s, output queue size 19
progress 20% @chr3:130000001, elapsed 0.4s, est remaining 1.4s, peak mem 695MB, user 0.9s, sys 9.5s, output queue size 23
progress 25% @chr4:117000001, elapsed 0.4s, est remaining 1.3s, peak mem 788MB, user 1.0s, sys 11.9s, output queue size 9
progress 30% @chr5:87000001, elapsed 0.5s, est remaining 1.2s, peak mem 830MB, user 1.2s, sys 14.2s, output queue size 15
progress 35% @chr6:67000001, elapsed 0.6s, est remaining 1.1s, peak mem 893MB, user 1.3s, sys 16.6s, output queue size 18
progress 40% @chr7:55000001, elapsed 0.7s, est remaining 1.0s, peak mem 942MB, user 1.5s, sys 18.9s, output queue size 5
progress 45% @chr8:57000001, elapsed 0.8s, est remaining 0.9s, peak mem 1074MB, user 1.7s, sys 21.2s, output queue size 65
progress 50% @chr9:75000001, elapsed 0.8s, est remaining 0.8s, peak mem 1190MB, user 1.9s, sys 23.7s, output queue size 12
progress 55% @chr10:97000001, elapsed 0.9s, est remaining 0.8s, peak mem 1265MB, user 2.2s, sys 25.9s, output queue size 16
progress 60% @chr11:123000001, elapsed 1.0s, est remaining 0.7s, peak mem 1317MB, user 2.3s, sys 28.3s, output queue size 14
progress 65% @chr13:17000001, elapsed 1.1s, est remaining 0.6s, peak mem 1380MB, user 2.6s, sys 30.6s, output queue size 1
progress 70% @chr14:50000001, elapsed 1.2s, est remaining 0.5s, peak mem 1431MB, user 2.8s, sys 32.9s, output queue size 12
progress 75% @chr16:14000001, elapsed 1.3s, est remaining 0.4s, peak mem 1479MB, user 3.1s, sys 35.2s, output queue size 12
progress 80% @chr18:1000001, elapsed 1.3s, est remaining 0.3s, peak mem 1514MB, user 3.3s, sys 37.6s, output queue size 16
progress 85% @chr20:23000001, elapsed 1.4s, est remaining 0.3s, peak mem 1607MB, user 3.6s, sys 40.0s, output queue size 12
progress 90% @chrX:44000001, elapsed 1.7s, est remaining 0.2s, peak mem 2798MB, user 6.3s, sys 41.3s, output queue size 114
progress 95% @chrY:43000001, elapsed 1.9s, est remaining 0.1s, peak mem 2817MB, user 8.3s, sys 41.8s, output queue size 276
progress 100% @chr21:41000001, elapsed 4.5s, est remaining 0.0s, peak mem 2840MB, user 22.7s, sys 43.0s, 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: 50813908
output file size: 81484551
reads: 1001320
contig: 3367 intervals 3217346917 bases
ReadQualCal::clearEPSVecOne: 8 calls 0.000 user 0.000 sys 0.020 real
ReadQualCal::delayed_init: 1 calls 0.003 user 0.001 sys 0.021 real
ReadQualCal::init: 1 calls 0.008 user 0.002 sys 0.006 real
advance: 3219322 calls 1.637 user 5.206 sys 6.859 real
done: 1 calls 0.357 user 0.157 sys 0.516 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.001 user 0.000 sys 4.517 real
fetch: 3219322 calls 0.197 user 4.732 sys 5.548 real
fetch_reads: 3219322 calls 0.241 user 5.076 sys 5.642 real
fetch_ref: 11263 calls 0.047 user 0.009 sys 0.044 real
fetch_vcf: 11263 calls 1.120 user 0.040 sys 1.273 real
idle: 2501 calls 1.916 user 0.336 sys 98.004 real
init: 1 calls 0.009 user 0.001 sys 0.027 real
update: 11451 calls 5.820 user 1.037 sys 7.606 real
write: 3219322 calls 9.838 user 5.092 sys 14.948 real
overall: 2980544512 mem 28.684 user 43.868 sys 5.848 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 0.020 user 0.000 sys 0.024 real
done: 1 calls 0.040 user 0.010 sys 0.053 real
idle: 61 calls 0.002 user 0.000 sys 31.370 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 82059264 mem 0.062 user 0.037 sys 1.052 real