cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -r Homo_sapiens_assembly38.fasta -i HCC1395_BL.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_BL.table
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:119893964, elapsed 0.1s, est remaining 1.2s, peak mem 160MB, user 0.0s, sys 0.0s, output queue size 2697
progress 10% @chr2:20256033, elapsed 0.1s, est remaining 1.0s, peak mem 160MB, user 0.0s, sys 0.0s, output queue size 11447
progress 15% @chr2:189066390, elapsed 0.2s, est remaining 1.0s, peak mem 160MB, user 0.0s, sys 0.0s, output queue size 4830
progress 20% @chr3:97871842, elapsed 0.2s, est remaining 0.9s, peak mem 160MB, user 0.0s, sys 0.0s, output queue size 15289
progress 25% @chr4:86101052, elapsed 0.3s, est remaining 0.9s, peak mem 169MB, user 0.1s, sys 0.0s, output queue size 25561
progress 30% @chr5:149252757, elapsed 0.4s, est remaining 0.9s, peak mem 169MB, user 0.1s, sys 0.1s, output queue size 35771
progress 35% @chr6:127137390, elapsed 0.4s, est remaining 0.7s, peak mem 169MB, user 0.1s, sys 0.1s, output queue size 45536
progress 40% @chr7:128801186, elapsed 0.5s, est remaining 0.7s, peak mem 169MB, user 0.1s, sys 0.1s, output queue size 55030
progress 45% @chr9:2041589, elapsed 0.5s, est remaining 0.6s, peak mem 292MB, user 0.1s, sys 0.1s, output queue size 64411
progress 50% @chr10:32284698, elapsed 0.6s, est remaining 0.6s, peak mem 295MB, user 0.1s, sys 0.1s, output queue size 74339
progress 55% @chr11:48245104, elapsed 0.7s, est remaining 0.5s, peak mem 301MB, user 0.1s, sys 0.2s, output queue size 1296
progress 60% @chr12:21915668, elapsed 0.7s, est remaining 0.5s, peak mem 301MB, user 0.1s, sys 0.2s, output queue size 10848
progress 65% @chr13:49220338, elapsed 0.8s, est remaining 0.4s, peak mem 301MB, user 0.1s, sys 0.2s, output queue size 21899
progress 70% @chr15:42729796, elapsed 0.8s, est remaining 0.4s, peak mem 301MB, user 0.1s, sys 0.2s, output queue size 31953
progress 75% @chr16:30964612, elapsed 0.9s, est remaining 0.3s, peak mem 301MB, user 0.1s, sys 0.2s, output queue size 41509
progress 80% @chr17:42562612, elapsed 0.9s, est remaining 0.2s, peak mem 301MB, user 0.1s, sys 0.2s, output queue size 52194
progress 85% @chr19:5587868, elapsed 1.0s, est remaining 0.2s, peak mem 334MB, user 0.2s, sys 0.2s, output queue size 62607
progress 90% @chr19:55731999, elapsed 1.1s, est remaining 0.1s, peak mem 334MB, user 0.2s, sys 0.3s, output queue size 72097
progress 95% @chr22:36937342, elapsed 1.9s, est remaining 0.1s, peak mem 2461MB, user 8.0s, sys 12.0s, output queue size 3217
progress 100% @chrY:2866793, elapsed 1.9s, est remaining 0.0s, peak mem 2461MB, user 8.1s, sys 12.0s, output queue size 7115
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 31 max 384
algo: QualCal
license: sentieon:QualCal=31
input file size: 51395357
reads: 1001089
contig: 201779 intervals 37922265 bases
advance: 208647 calls 2.283 user 0.391 sys 3.114 real
done: 1 calls 0.689 user 0.497 sys 1.193 real
execute: 1 calls 0.013 user 0.001 sys 1.950 real
fetch_reads: 208647 calls 0.216 user 0.023 sys 0.282 real
fetch_ref: 2042 calls 0.029 user 0.019 sys 0.130 real
fetch_vcf: 2042 calls 0.925 user 0.099 sys 1.359 real
idle: 123 calls 0.006 user 0.003 sys 63.306 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
update: 2207 calls 5.617 user 11.280 sys 17.856 real
overall: 2580901888 mem 12.755 user 14.659 sys 4.566 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