cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -r Homo_sapiens_assembly38.fasta -i HCC1395_tumor.md.bam --interval xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.bed --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
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:119911554, elapsed 0.0s, est remaining 0.9s, peak mem 164MB, user 0.0s, sys 0.0s, output queue size 2565
progress 10% @chr2:20001955, elapsed 0.1s, est remaining 0.8s, peak mem 164MB, user 0.0s, sys 0.0s, output queue size 9274
progress 15% @chr2:189048209, elapsed 0.1s, est remaining 0.8s, peak mem 164MB, user 0.0s, sys 0.0s, output queue size 6950
progress 20% @chr3:97954392, elapsed 0.2s, est remaining 0.7s, peak mem 164MB, user 0.0s, sys 0.0s, output queue size 17438
progress 25% @chr4:88007734, elapsed 0.2s, est remaining 0.7s, peak mem 167MB, user 0.0s, sys 0.0s, output queue size 27687
progress 30% @chr5:147375090, elapsed 0.3s, est remaining 0.6s, peak mem 173MB, user 0.0s, sys 0.0s, output queue size 37721
progress 35% @chr6:127119291, elapsed 0.3s, est remaining 0.6s, peak mem 176MB, user 0.0s, sys 0.0s, output queue size 4058
progress 40% @chr7:128723197, elapsed 0.4s, est remaining 0.5s, peak mem 176MB, user 0.0s, sys 0.0s, output queue size 13536
progress 45% @chr9:1051614, elapsed 0.4s, est remaining 0.5s, peak mem 329MB, user 0.0s, sys 0.0s, output queue size 22915
progress 50% @chr10:32574429, elapsed 0.4s, est remaining 0.4s, peak mem 347MB, user 0.0s, sys 0.1s, output queue size 32849
progress 55% @chr11:48245104, elapsed 0.5s, est remaining 0.4s, peak mem 347MB, user 0.0s, sys 0.1s, output queue size 43305
progress 60% @chr12:21638353, elapsed 0.5s, est remaining 0.4s, peak mem 356MB, user 0.0s, sys 0.1s, output queue size 52859
progress 65% @chr13:49267490, elapsed 0.6s, est remaining 0.3s, peak mem 356MB, user 0.0s, sys 0.1s, output queue size 63912
progress 70% @chr15:42718435, elapsed 0.6s, est remaining 0.3s, peak mem 365MB, user 0.0s, sys 0.1s, output queue size 73961
progress 75% @chr16:30958732, elapsed 0.7s, est remaining 0.2s, peak mem 365MB, user 0.0s, sys 0.1s, output queue size 83512
progress 80% @chr17:42287788, elapsed 0.7s, est remaining 0.2s, peak mem 365MB, user 0.0s, sys 0.1s, output queue size 94208
progress 85% @chr19:5455492, elapsed 0.8s, est remaining 0.1s, peak mem 383MB, user 0.0s, sys 0.1s, output queue size 104617
progress 90% @chr19:55481201, elapsed 0.8s, est remaining 0.1s, peak mem 383MB, user 0.0s, sys 0.1s, output queue size 114110
progress 95% @chr22:37001837, elapsed 1.2s, est remaining 0.1s, peak mem 2516MB, user 6.4s, sys 2.1s, output queue size 3223
progress 100% @chrY:24796027, elapsed 1.2s, est remaining 0.0s, peak mem 2516MB, user 6.5s, sys 2.1s, output queue size 5663
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000c06f2
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: INTEL(R) XEON(R) PLATINUM 8559C
threads: 31 max 192
algo: QualCal
license: sentieon:QualCal=31
input file size: 50813902
reads: 1001320
contig: 201779 intervals 37922265 bases
advance: 208647 calls 1.939 user 0.220 sys 2.307 real
done: 1 calls 0.277 user 0.128 sys 0.405 real
execute: 1 calls 0.014 user 0.001 sys 1.220 real
fetch_reads: 208647 calls 0.125 user 0.006 sys 0.153 real
fetch_ref: 2048 calls 0.025 user 0.036 sys 0.033 real
fetch_vcf: 2048 calls 0.758 user 0.060 sys 0.976 real
idle: 92 calls 0.002 user 0.001 sys 31.508 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
update: 2195 calls 4.219 user 1.777 sys 6.852 real
overall: 2638852096 mem 9.565 user 4.957 sys 2.608 real
ls: cannot access '*.table.post': No such file or directory
ls: cannot access '*.recalibrated.bam': No such file or directory
ls: cannot access '*.recalibrated.bam.bai': No such file or directory
ls: cannot access '*.csv': No such file or directory
ls: cannot access '*.pdf': No such file or directory