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% @chr8:144255509, elapsed 0.1s, est remaining 1.1s, peak mem 87MB, user 0.0s, sys 0.2s, output queue size 2354
progress 10% @chr9:36833270, elapsed 0.1s, est remaining 1.0s, peak mem 96MB, user 0.1s, sys 0.4s, output queue size 1807
progress 15% @chr9:96758778, elapsed 0.1s, est remaining 0.8s, peak mem 104MB, user 0.2s, sys 0.5s, output queue size 3585
progress 20% @chr9:128970758, elapsed 0.2s, est remaining 0.8s, peak mem 116MB, user 0.2s, sys 0.9s, output queue size 6220
progress 25% @chr10:14935463, elapsed 0.3s, est remaining 0.8s, peak mem 125MB, user 0.3s, sys 1.1s, output queue size 8964
progress 30% @chr10:69199104, elapsed 0.3s, est remaining 0.7s, peak mem 137MB, user 0.3s, sys 1.4s, output queue size 11343
progress 35% @chr10:100498705, elapsed 0.4s, est remaining 0.7s, peak mem 146MB, user 0.4s, sys 1.7s, output queue size 14000
progress 40% @chr11:294556, elapsed 0.4s, est remaining 0.7s, peak mem 158MB, user 0.4s, sys 2.0s, output queue size 16583
progress 45% @chr11:17878208, elapsed 0.5s, est remaining 0.6s, peak mem 168MB, user 0.5s, sys 2.3s, output queue size 18736
progress 50% @chr11:61416105, elapsed 0.5s, est remaining 0.5s, peak mem 177MB, user 0.5s, sys 2.5s, output queue size 21098
progress 55% @chr11:73234160, elapsed 0.6s, est remaining 0.5s, peak mem 189MB, user 0.6s, sys 2.9s, output queue size 23775
progress 60% @chr11:114521968, elapsed 0.7s, est remaining 0.4s, peak mem 199MB, user 0.7s, sys 3.0s, output queue size 26067
progress 65% @chr12:6465842, elapsed 0.7s, est remaining 0.4s, peak mem 209MB, user 0.7s, sys 3.4s, output queue size 28426
progress 70% @chr12:31667647, elapsed 0.8s, est remaining 0.3s, peak mem 219MB, user 0.8s, sys 3.6s, output queue size 30515
progress 75% @chr12:55958473, elapsed 0.8s, est remaining 0.3s, peak mem 227MB, user 0.8s, sys 3.9s, output queue size 32991
progress 80% @chr12:100058029, elapsed 0.9s, est remaining 0.2s, peak mem 239MB, user 0.9s, sys 4.3s, output queue size 35724
progress 85% @chr12:123756815, elapsed 0.9s, est remaining 0.2s, peak mem 249MB, user 0.9s, sys 4.5s, output queue size 38577
progress 90% @chr13:48459668, elapsed 1.0s, est remaining 0.1s, peak mem 258MB, user 1.0s, sys 4.8s, output queue size 40947
progress 95% @chr14:22633768, elapsed 1.0s, est remaining 0.1s, peak mem 267MB, user 1.1s, sys 5.0s, output queue size 43199
progress 100% @chr14:60811987, elapsed 1.1s, est remaining 0.0s, peak mem 278MB, user 1.1s, sys 5.3s, output queue size 45753
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
cpu vendor: GenuineIntel
 signature: 000606a6
  features: 1f8bfbff fffa320b
  extended: f1bf07ab 00407f5a
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) Platinum 8375C CPU @ 2.90GHz
threads: 12 max 128
algo: Haplotyper
license: sentieon:Haplotyper=12
input file size: 74559500
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 0.007 user 0.008 sys 0.021 real
advance: 50143 calls 0.000 user 0.025 sys 0.025 real
assemble_region: 1 calls 0.000 user 0.000 sys 0.000 real
calc: 98785 calls 0.021 user 0.000 sys 0.020 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 0.004 user 0.002 sys 2.039 real
fetch: 98785 calls 0.001 user 0.018 sys 0.021 real
fetch_ref: 98786 calls 0.162 user 0.087 sys 0.407 real
fetch_region: 1 calls 0.000 user 0.000 sys 0.000 real
idle: 39 calls 0.005 user 0.019 sys 23.672 real
init: 1 calls 0.039 user 0.011 sys 0.047 real
region: 98785 calls 0.000 user 0.022 sys 0.023 real
tracker: 98785 calls 0.030 user 0.013 sys 0.108 real
trim_region: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 295043072 mem 1.767 user 7.326 sys 3.178 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory