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% @chr1:119893964, elapsed 0.0s, est remaining 0.7s, peak mem 164MB, user 0.0s, sys 0.0s, output queue size 1346
progress 10% @chr2:19936219, elapsed 0.1s, est remaining 0.6s, peak mem 164MB, user 0.0s, sys 0.0s, output queue size 11383
progress 15% @chr2:189011628, elapsed 0.1s, est remaining 0.5s, peak mem 164MB, user 0.0s, sys 0.0s, output queue size 5959
progress 20% @chr3:97871842, elapsed 0.1s, est remaining 0.5s, peak mem 164MB, user 0.0s, sys 0.0s, output queue size 142
progress 25% @chr4:88405554, elapsed 0.2s, est remaining 0.5s, peak mem 164MB, user 0.0s, sys 0.0s, output queue size 10409
progress 30% @chr5:146514854, elapsed 0.2s, est remaining 0.4s, peak mem 173MB, user 0.0s, sys 0.0s, output queue size 20447
progress 35% @chr6:127119291, elapsed 0.2s, est remaining 0.4s, peak mem 173MB, user 0.0s, sys 0.0s, output queue size 30407
progress 40% @chr7:128810139, elapsed 0.2s, est remaining 0.4s, peak mem 173MB, user 0.0s, sys 0.0s, output queue size 39888
progress 45% @chr9:2023148, elapsed 0.3s, est remaining 0.3s, peak mem 317MB, user 0.0s, sys 0.0s, output queue size 9488
progress 50% @chr10:30336803, elapsed 0.3s, est remaining 0.3s, peak mem 349MB, user 0.0s, sys 0.1s, output queue size 19416
progress 55% @chr11:48245104, elapsed 0.3s, est remaining 0.3s, peak mem 349MB, user 0.0s, sys 0.1s, output queue size 29890
progress 60% @chr12:21936533, elapsed 0.3s, est remaining 0.2s, peak mem 355MB, user 0.0s, sys 0.1s, output queue size 39437
progress 65% @chr13:49267490, elapsed 0.4s, est remaining 0.2s, peak mem 358MB, user 0.0s, sys 0.1s, output queue size 50484
progress 70% @chr15:42684116, elapsed 0.4s, est remaining 0.2s, peak mem 367MB, user 0.0s, sys 0.1s, output queue size 60521
progress 75% @chr16:30927745, elapsed 0.4s, est remaining 0.1s, peak mem 367MB, user 0.0s, sys 0.1s, output queue size 70100
progress 80% @chr17:42562612, elapsed 0.5s, est remaining 0.1s, peak mem 367MB, user 0.0s, sys 0.1s, output queue size 80776
progress 85% @chr19:5650978, elapsed 0.5s, est remaining 0.1s, peak mem 380MB, user 0.0s, sys 0.1s, output queue size 5307
progress 90% @chr19:55695148, elapsed 0.5s, est remaining 0.1s, peak mem 380MB, user 0.0s, sys 0.1s, output queue size 14811
progress 95% @chr22:36480575, elapsed 0.9s, est remaining 0.0s, peak mem 2533MB, user 6.7s, sys 1.8s, output queue size 643
progress 100% @chr6_GL000251v2_alt:3934019, elapsed 0.9s, est remaining 0.0s, peak mem 2533MB, user 6.7s, sys 1.8s, output queue size 6612
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: 50813905
reads: 1001320
contig: 201779 intervals 37922265 bases
advance: 208647 calls 1.761 user 0.096 sys 2.189 real
done: 1 calls 0.245 user 0.159 sys 0.404 real
execute: 1 calls 0.002 user 0.010 sys 0.919 real
fetch_reads: 208647 calls 0.109 user 0.002 sys 0.139 real
fetch_ref: 2048 calls 0.005 user 0.019 sys 0.013 real
fetch_vcf: 2048 calls 0.933 user 0.053 sys 0.954 real
idle: 91 calls 0.003 user 0.001 sys 31.557 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
update: 2195 calls 4.472 user 1.603 sys 6.807 real
overall: 2656190464 mem 9.602 user 4.485 sys 2.308 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