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% @chr1:119802828, elapsed 0.0s, est remaining 0.8s, peak mem 163MB, user 0.0s, sys 0.0s, output queue size 2592
progress 10% @chr2:19931269, elapsed 0.1s, est remaining 0.8s, peak mem 163MB, user 0.0s, sys 0.0s, output queue size 379
progress 15% @chr2:189036616, elapsed 0.1s, est remaining 0.7s, peak mem 163MB, user 0.0s, sys 0.0s, output queue size 10778
progress 20% @chr3:97871842, elapsed 0.2s, est remaining 0.7s, peak mem 163MB, user 0.0s, sys 0.0s, output queue size 21247
progress 25% @chr4:88262595, elapsed 0.2s, est remaining 0.6s, peak mem 165MB, user 0.0s, sys 0.0s, output queue size 31509
progress 30% @chr5:146691128, elapsed 0.2s, est remaining 0.6s, peak mem 172MB, user 0.0s, sys 0.0s, output queue size 41550
progress 35% @chr6:127119291, elapsed 0.3s, est remaining 0.5s, peak mem 172MB, user 0.0s, sys 0.0s, output queue size 51500
progress 40% @chr7:128726828, elapsed 0.3s, est remaining 0.5s, peak mem 175MB, user 0.0s, sys 0.0s, output queue size 430
progress 45% @chr9:841839, elapsed 0.4s, est remaining 0.4s, peak mem 322MB, user 0.0s, sys 0.0s, output queue size 9802
progress 50% @chr10:32022020, elapsed 0.4s, est remaining 0.4s, peak mem 348MB, user 0.0s, sys 0.0s, output queue size 19744
progress 55% @chr11:47812302, elapsed 0.4s, est remaining 0.3s, peak mem 348MB, user 0.0s, sys 0.0s, output queue size 30209
progress 60% @chr12:22055455, elapsed 0.5s, est remaining 0.3s, peak mem 355MB, user 0.0s, sys 0.0s, output queue size 39754
progress 65% @chr13:49185964, elapsed 0.5s, est remaining 0.3s, peak mem 357MB, user 0.0s, sys 0.0s, output queue size 50806
progress 70% @chr15:42528262, elapsed 0.5s, est remaining 0.2s, peak mem 366MB, user 0.0s, sys 0.0s, output queue size 60837
progress 75% @chr16:30964094, elapsed 0.6s, est remaining 0.2s, peak mem 366MB, user 0.0s, sys 0.0s, output queue size 70418
progress 80% @chr17:42543028, elapsed 0.6s, est remaining 0.2s, peak mem 367MB, user 0.0s, sys 0.0s, output queue size 81092
progress 85% @chr19:5664022, elapsed 0.7s, est remaining 0.1s, peak mem 376MB, user 0.0s, sys 0.0s, output queue size 91502
progress 90% @chr19:55712420, elapsed 0.7s, est remaining 0.1s, peak mem 376MB, user 0.0s, sys 0.0s, output queue size 101005
progress 95% @chr22:36511503, elapsed 1.0s, est remaining 0.1s, peak mem 2514MB, user 6.4s, sys 2.2s, output queue size 1139
progress 100% @chr6_GL000254v2_alt:3878686, elapsed 1.1s, est remaining 0.0s, peak mem 2514MB, user 6.4s, sys 2.2s, output queue size 6411
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
input file size: 50815488
reads: 1001320
contig: 201779 intervals 37922265 bases
advance: 208647 calls 1.689 user 0.039 sys 2.102 real
done: 1 calls 0.248 user 0.109 sys 0.358 real
execute: 1 calls 0.007 user 0.002 sys 1.090 real
fetch_reads: 208647 calls 0.060 user 0.000 sys 0.139 real
fetch_ref: 2048 calls 0.005 user 0.013 sys 0.021 real
fetch_vcf: 2048 calls 0.830 user 0.025 sys 0.922 real
idle: 91 calls 0.001 user 0.002 sys 31.621 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
update: 2195 calls 4.336 user 2.100 sys 6.933 real
overall: 2636382208 mem 9.733 user 19.573 sys 2.463 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