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% @chr4:86809769, elapsed 0.0s, est remaining 0.8s, peak mem 87MB, user 0.1s, sys 0.1s, output queue size 914
progress 10% @chr4:152382154, elapsed 0.1s, est remaining 0.7s, peak mem 96MB, user 0.1s, sys 0.2s, output queue size 3312
progress 15% @chr5:36142502, elapsed 0.1s, est remaining 0.6s, peak mem 105MB, user 0.1s, sys 0.3s, output queue size 5773
progress 20% @chr5:91072447, elapsed 0.2s, est remaining 0.6s, peak mem 115MB, user 0.2s, sys 0.5s, output queue size 8354
progress 25% @chr5:141192553, elapsed 0.2s, est remaining 0.6s, peak mem 127MB, user 0.2s, sys 0.7s, output queue size 10756
progress 30% @chr5:177302752, elapsed 0.2s, est remaining 0.5s, peak mem 133MB, user 0.2s, sys 0.9s, output queue size 12874
progress 35% @chr6:30948547, elapsed 0.3s, est remaining 0.5s, peak mem 142MB, user 0.2s, sys 1.0s, output queue size 15066
progress 40% @chr6:43625363, elapsed 0.3s, est remaining 0.4s, peak mem 151MB, user 0.3s, sys 1.1s, output queue size 17610
progress 45% @chr6:106525268, elapsed 0.3s, est remaining 0.4s, peak mem 159MB, user 0.3s, sys 1.3s, output queue size 20075
progress 50% @chr6:149450683, elapsed 0.4s, est remaining 0.4s, peak mem 174MB, user 0.3s, sys 1.4s, output queue size 22172
progress 55% @chr7:13911239, elapsed 0.4s, est remaining 0.3s, peak mem 183MB, user 0.4s, sys 1.6s, output queue size 24433
progress 60% @chr7:64077276, elapsed 0.4s, est remaining 0.3s, peak mem 193MB, user 0.4s, sys 1.7s, output queue size 26504
progress 65% @chr7:100951841, elapsed 0.5s, est remaining 0.3s, peak mem 204MB, user 0.5s, sys 1.9s, output queue size 29019
progress 70% @chr7:139405644, elapsed 0.5s, est remaining 0.2s, peak mem 214MB, user 0.5s, sys 2.0s, output queue size 31390
progress 75% @chr8:13099347, elapsed 0.5s, est remaining 0.2s, peak mem 222MB, user 0.5s, sys 2.1s, output queue size 33442
progress 80% @chr8:38823990, elapsed 0.6s, est remaining 0.1s, peak mem 231MB, user 0.6s, sys 2.3s, output queue size 35065
progress 85% @chrX:15600726, elapsed 0.6s, est remaining 0.1s, peak mem 240MB, user 0.6s, sys 2.4s, output queue size 37601
progress 90% @chrX:54959827, elapsed 0.6s, est remaining 0.1s, peak mem 253MB, user 0.6s, sys 2.6s, output queue size 1320
progress 95% @chrX:111721603, elapsed 0.7s, est remaining 0.0s, peak mem 261MB, user 0.7s, sys 2.7s, output queue size 3257
progress 100% @chrX:156009816, elapsed 0.7s, est remaining 0.0s, peak mem 270MB, user 0.7s, sys 2.8s, output queue size 5476
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: 12 max 192
algo: Haplotyper
license: sentieon:Haplotyper=12
input file size: 74318159
output file size: 22311
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 0.010 user 0.019 sys 0.017 real
advance: 47638 calls 0.028 user 0.013 sys 0.024 real
assemble_region: 1 calls 0.000 user 0.000 sys 0.001 real
calc: 93348 calls 0.000 user 0.000 sys 0.017 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 0.001 user 0.001 sys 1.297 real
fetch: 93348 calls 0.000 user 0.000 sys 0.017 real
fetch_ref: 93349 calls 0.106 user 0.073 sys 0.373 real
fetch_region: 1 calls 0.000 user 0.000 sys 0.000 real
idle: 39 calls 0.008 user 0.026 sys 19.454 real
init: 1 calls 0.037 user 0.003 sys 0.041 real
region: 93348 calls 0.000 user 0.000 sys 0.020 real
tracker: 93348 calls 0.025 user 0.008 sys 0.083 real
trim_region: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 283381760 mem 1.272 user 4.551 sys 2.416 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory