cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -r Homo_sapiens_assembly38.fasta -t 12 --interval chr4_30730753-30730788.bed.gz -i Sig_18_Blood.recalibrated.bam --algo Haplotyper -d dbsnp_146.hg38.vcf.gz --emit_mode variant germline_control_2.haplotyper.chr4_30730753-30730788.bed.unfiltered.vcf.gz
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr4:86785848, elapsed 0.1s, est remaining 1.0s, peak mem 75MB, user 0.0s, sys 0.2s, output queue size 1190
progress 10% @chr4:152332564, elapsed 0.1s, est remaining 0.8s, peak mem 78MB, user 0.0s, sys 0.3s, output queue size 3585
progress 15% @chr5:36163645, elapsed 0.1s, est remaining 0.8s, peak mem 87MB, user 0.1s, sys 0.5s, output queue size 6054
progress 20% @chr5:91150030, elapsed 0.2s, est remaining 0.8s, peak mem 96MB, user 0.1s, sys 0.7s, output queue size 8633
progress 25% @chr5:141192553, elapsed 0.3s, est remaining 0.8s, peak mem 102MB, user 0.2s, sys 0.8s, output queue size 11037
progress 30% @chr5:177303009, elapsed 0.3s, est remaining 0.8s, peak mem 105MB, user 0.2s, sys 0.9s, output queue size 13157
progress 35% @chr6:30948547, elapsed 0.4s, est remaining 0.7s, peak mem 108MB, user 0.2s, sys 1.1s, output queue size 15352
progress 40% @chr6:43625363, elapsed 0.5s, est remaining 0.8s, peak mem 117MB, user 0.3s, sys 1.4s, output queue size 167
progress 45% @chr6:106519131, elapsed 0.6s, est remaining 0.7s, peak mem 126MB, user 0.3s, sys 1.6s, output queue size 2636
progress 50% @chr6:149474239, elapsed 0.7s, est remaining 0.7s, peak mem 132MB, user 0.3s, sys 1.9s, output queue size 4732
progress 55% @chr7:13911239, elapsed 0.7s, est remaining 0.6s, peak mem 138MB, user 0.3s, sys 2.1s, output queue size 6988
progress 60% @chr7:64521161, elapsed 0.8s, est remaining 0.5s, peak mem 150MB, user 0.4s, sys 2.3s, output queue size 9062
progress 65% @chr7:100951841, elapsed 0.8s, est remaining 0.4s, peak mem 156MB, user 0.4s, sys 2.6s, output queue size 11576
progress 70% @chr7:139398599, elapsed 0.9s, est remaining 0.4s, peak mem 162MB, user 0.4s, sys 2.7s, output queue size 13944
progress 75% @chr8:12737995, elapsed 0.9s, est remaining 0.3s, peak mem 165MB, user 0.5s, sys 2.9s, output queue size 16006
progress 80% @chr8:38827168, elapsed 1.0s, est remaining 0.3s, peak mem 165MB, user 0.5s, sys 3.0s, output queue size 17623
progress 85% @chrX:14864560, elapsed 1.2s, est remaining 0.2s, peak mem 165MB, user 0.6s, sys 3.3s, output queue size 20134
progress 90% @chrX:55002251, elapsed 1.3s, est remaining 0.1s, peak mem 168MB, user 0.6s, sys 3.5s, output queue size 22498
progress 95% @chrX:111722793, elapsed 1.5s, est remaining 0.1s, peak mem 177MB, user 0.6s, sys 3.7s, output queue size 24431
progress 100% @chrX:154477944, elapsed 1.6s, est remaining 0.0s, peak mem 180MB, user 0.7s, sys 3.9s, output queue size 26649
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: 1f8bfbff fffab20b
  extended: f1bf27eb 1b407f7e
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 12 max 384
algo: Haplotyper
license: sentieon:Haplotyper=12
input file size: 74586800
output file size: 22310
reads: 1001133
contig: 45710 intervals 9000068 bases
"assemble": 1 calls 0.000 user 0.000 sys 0.001 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": 2 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": 2 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": 2 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_op1": 2 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_op2": 2 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_op3": 2 calls 0.000 user 0.000 sys 0.000 real
"assemble_sg_clean": 2 calls 0.000 user 0.000 sys 0.000 real
"assemble_sg_create": 2 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: 93348 calls 0.000 user 0.005 sys 0.018 real
advance: 47638 calls 0.009 user 0.010 sys 0.029 real
assemble_region: 1 calls 0.000 user 0.000 sys 0.001 real
calc: 93348 calls 0.000 user 0.000 sys 0.018 real
clip_region: 1 calls 0.000 user 0.000 sys 0.000 real
done: 1 calls 0.004 user 0.000 sys 0.004 real
execute: 1 calls 0.005 user 0.004 sys 3.470 real
fetch: 93348 calls 0.010 user 0.001 sys 0.019 real
fetch_ref: 93349 calls 0.060 user 0.065 sys 0.419 real
fetch_region: 1 calls 0.000 user 0.000 sys 0.000 real
idle: 51 calls 0.004 user 0.016 sys 34.721 real
init: 1 calls 0.030 user 0.020 sys 0.044 real
region: 93348 calls 0.000 user 0.000 sys 0.023 real
tracker: 93348 calls 0.021 user 0.004 sys 0.094 real
trim_region: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 188882944 mem 1.274 user 6.678 sys 4.631 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory