cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -r Homo_sapiens_assembly38.fasta -i Sig_18_tissue.md.bam --read_filter QualCalFilter,table=Sig_18_tissue.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 Sig_18_tissue.table.post --algo ReadWriter Sig_18_tissue.recalibrated.bam
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:160000001, elapsed 0.2s, est remaining 4.5s, peak mem 408MB, user 0.3s, sys 6.1s, output queue size 6
progress 10% @chr2:66000001, elapsed 0.4s, est remaining 4.0s, peak mem 795MB, user 0.7s, sys 12.1s, output queue size 41
progress 15% @chr2:232000001, elapsed 0.6s, est remaining 3.6s, peak mem 1005MB, user 1.1s, sys 18.1s, output queue size 3
progress 20% @chr3:151000001, elapsed 0.8s, est remaining 3.4s, peak mem 1188MB, user 1.4s, sys 23.8s, output queue size 2
progress 25% @chr4:114000001, elapsed 1.0s, est remaining 3.1s, peak mem 1353MB, user 1.8s, sys 29.6s, output queue size 4
progress 30% @chr5:87000001, elapsed 1.2s, est remaining 2.9s, peak mem 1518MB, user 2.1s, sys 35.5s, output queue size 9
progress 35% @chr6:66000001, elapsed 1.4s, est remaining 2.7s, peak mem 1638MB, user 2.4s, sys 41.3s, output queue size 3
progress 40% @chr7:56000001, elapsed 1.6s, est remaining 2.5s, peak mem 1743MB, user 2.7s, sys 47.1s, output queue size 1
progress 45% @chr8:50000001, elapsed 1.8s, est remaining 2.2s, peak mem 1887MB, user 2.9s, sys 53.0s, output queue size 7
progress 50% @chr9:62000001, elapsed 2.1s, est remaining 2.1s, peak mem 1956MB, user 3.2s, sys 60.2s, output queue size 11
progress 55% @chr10:86000001, elapsed 2.4s, est remaining 1.9s, peak mem 2010MB, user 3.5s, sys 68.7s, output queue size 20
progress 60% @chr12:4000001, elapsed 2.7s, est remaining 1.8s, peak mem 2019MB, user 3.9s, sys 77.1s, output queue size 12
progress 65% @chr13:7000001, elapsed 3.0s, est remaining 1.6s, peak mem 2109MB, user 4.3s, sys 86.5s, output queue size 11
progress 70% @chr14:78000001, elapsed 3.3s, est remaining 1.4s, peak mem 2157MB, user 4.7s, sys 95.5s, output queue size 12
progress 75% @chr16:1, elapsed 3.6s, est remaining 1.2s, peak mem 2184MB, user 5.0s, sys 104.6s, output queue size 14
progress 80% @chr18:18000001, elapsed 3.9s, est remaining 1.0s, peak mem 2229MB, user 5.2s, sys 113.8s, output queue size 12
progress 85% @chr20:11000001, elapsed 4.2s, est remaining 0.7s, peak mem 2295MB, user 5.7s, sys 122.9s, output queue size 17
progress 90% @chrX:41000001, elapsed 4.7s, est remaining 0.5s, peak mem 2772MB, user 10.1s, sys 126.5s, output queue size 114
progress 95% @chrY:39000001, elapsed 4.9s, est remaining 0.3s, peak mem 2790MB, user 13.5s, sys 128.5s, output queue size 276
progress 100% @chr21:41000001, elapsed 8.6s, est remaining 0.0s, peak mem 2802MB, user 32.0s, sys 132.6s, 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: 50047071
output file size: 93248829
reads: 1001838
contig: 3367 intervals 3217346917 bases
ReadQualCal::clearEPSVecOne: 8 calls 0.002 user 0.012 sys 0.032 real
ReadQualCal::delayed_init: 1 calls 0.001 user 0.000 sys 0.022 real
ReadQualCal::init: 1 calls 0.000 user 0.000 sys 0.006 real
advance: 3219322 calls 1.712 user 16.819 sys 18.662 real
done: 1 calls 0.309 user 0.364 sys 0.677 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.000 user 0.008 sys 8.672 real
fetch: 3219323 calls 0.309 user 15.641 sys 16.517 real
fetch_reads: 3219322 calls 0.258 user 16.136 sys 16.648 real
fetch_ref: 13004 calls 0.033 user 0.038 sys 0.068 real
fetch_vcf: 13004 calls 1.297 user 0.104 sys 1.670 real
idle: 1779 calls 1.419 user 0.332 sys 150.490 real
init: 1 calls 0.001 user 0.000 sys 0.029 real
update: 13229 calls 8.753 user 1.061 sys 10.436 real
write: 3219323 calls 14.029 user 16.194 sys 30.820 real
overall: 2938208256 mem 37.589 user 133.780 sys 10.750 real
cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 --algo QualCal --plot --before Sig_18_tissue.table --after Sig_18_tissue.table.post Sig_18_tissue.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 0.021 user 0.002 sys 0.028 real
done: 1 calls 0.058 user 0.002 sys 0.060 real
idle: 61 calls 0.003 user 0.000 sys 31.408 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 81944576 mem 0.081 user 0.034 sys 1.056 real