cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -r Homo_sapiens_assembly38.fasta -t 12 --interval chr8_93795409-93795507.bed.gz -i Sig_18_Blood.recalibrated.bam --algo Haplotyper -d dbsnp_146.hg38.vcf.gz --emit_mode variant germline_control_2.haplotyper.chr8_93795409-93795507.bed.unfiltered.vcf.gz
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr8:144397207, elapsed 0.2s, est remaining 4.2s, peak mem 75MB, user 0.0s, sys 0.1s, output queue size 2131
progress 10% @chr9:36833270, elapsed 0.3s, est remaining 2.3s, peak mem 84MB, user 0.1s, sys 0.2s, output queue size 4236
progress 15% @chr9:96758778, elapsed 0.3s, est remaining 1.7s, peak mem 87MB, user 0.1s, sys 0.3s, output queue size 422
progress 20% @chr9:128941668, elapsed 0.3s, est remaining 1.4s, peak mem 96MB, user 0.1s, sys 0.5s, output queue size 3043
progress 25% @chr10:14899250, elapsed 0.4s, est remaining 1.2s, peak mem 105MB, user 0.1s, sys 0.7s, output queue size 5798
progress 30% @chr10:69186443, elapsed 0.4s, est remaining 1.0s, peak mem 117MB, user 0.2s, sys 0.8s, output queue size 8182
progress 35% @chr10:100507425, elapsed 0.5s, est remaining 0.9s, peak mem 132MB, user 0.2s, sys 1.0s, output queue size 10840
progress 40% @chr11:299305, elapsed 0.5s, est remaining 0.8s, peak mem 141MB, user 0.2s, sys 1.2s, output queue size 13422
progress 45% @chr11:17771665, elapsed 0.6s, est remaining 0.7s, peak mem 156MB, user 0.2s, sys 1.4s, output queue size 15577
progress 50% @chr11:61416105, elapsed 0.6s, est remaining 0.6s, peak mem 156MB, user 0.2s, sys 1.6s, output queue size 17942
progress 55% @chr11:72988964, elapsed 0.7s, est remaining 0.5s, peak mem 162MB, user 0.3s, sys 1.8s, output queue size 20612
progress 60% @chr11:114443856, elapsed 0.7s, est remaining 0.5s, peak mem 174MB, user 0.3s, sys 2.0s, output queue size 22901
progress 65% @chr12:6466225, elapsed 0.7s, est remaining 0.4s, peak mem 186MB, user 0.3s, sys 2.2s, output queue size 25266
progress 70% @chr12:31709293, elapsed 0.8s, est remaining 0.3s, peak mem 192MB, user 0.3s, sys 2.3s, output queue size 27355
progress 75% @chr12:55958473, elapsed 0.8s, est remaining 0.3s, peak mem 201MB, user 0.4s, sys 2.5s, output queue size 29830
progress 80% @chr12:100051079, elapsed 0.9s, est remaining 0.2s, peak mem 219MB, user 0.4s, sys 2.8s, output queue size 32560
progress 85% @chr12:123774149, elapsed 1.0s, est remaining 0.2s, peak mem 228MB, user 0.5s, sys 3.0s, output queue size 35418
progress 90% @chr13:48456200, elapsed 1.0s, est remaining 0.1s, peak mem 234MB, user 0.5s, sys 3.3s, output queue size 37782
progress 95% @chr14:22610859, elapsed 1.0s, est remaining 0.1s, peak mem 252MB, user 0.6s, sys 3.4s, output queue size 40044
progress 100% @chr14:55637779, elapsed 1.1s, est remaining 0.0s, peak mem 255MB, user 0.6s, sys 3.7s, output queue size 42592
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: 12 max 384
algo: Haplotyper
license: sentieon:Haplotyper=12
input file size: 74586815
output file size: 22311
reads: 1001133
contig: 48642 intervals 9000010 bases
"assemble": 1 calls 0.000 user 0.000 sys 0.000 real
"assemble_addRead": 1 calls 0.000 user 0.000 sys 0.000 real
"assemble_buildGraph": 2 calls 0.000 user 0.000 sys 0.000 real
"assemble_computecigar": 1 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_build_calcsize": 2 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_build_clear": 3 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_build_prepare": 4 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_build_threading": 1 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_op1": 1 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_op2": 1 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_op3": 1 calls 0.000 user 0.000 sys 0.000 real
"assemble_sg_clean": 1 calls 0.000 user 0.000 sys 0.000 real
"assemble_sg_create": 1 calls 0.000 user 0.000 sys 0.000 real
"checkGraph": 1 calls 0.000 user 0.000 sys 0.000 real
"findHaplotype": 1 calls 0.000 user 0.000 sys 0.000 real
active: 98785 calls 0.010 user 0.001 sys 0.016 real
advance: 50143 calls 0.019 user 0.009 sys 0.019 real
assemble_region: 1 calls 0.000 user 0.000 sys 0.000 real
calc: 98785 calls 0.009 user 0.010 sys 0.016 real
clip_region: 1 calls 0.000 user 0.000 sys 0.000 real
done: 1 calls 0.000 user 0.000 sys 0.002 real
execute: 1 calls 0.005 user 0.003 sys 2.150 real
fetch: 98785 calls 0.000 user 0.010 sys 0.016 real
fetch_ref: 98786 calls 0.044 user 0.043 sys 0.345 real
fetch_region: 1 calls 0.000 user 0.000 sys 0.000 real
idle: 51 calls 0.006 user 0.030 sys 25.069 real
init: 1 calls 0.019 user 0.021 sys 0.042 real
region: 98785 calls 0.000 user 0.005 sys 0.018 real
tracker: 98785 calls 0.010 user 0.003 sys 0.089 real
trim_region: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 270663680 mem 1.048 user 5.810 sys 3.265 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory