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% @chr4:86799101, elapsed 0.1s, est remaining 1.3s, peak mem 75MB, user 0.0s, sys 0.2s, output queue size 2322
progress 10% @chr4:152332564, elapsed 0.1s, est remaining 1.2s, peak mem 87MB, user 0.0s, sys 0.4s, output queue size 1758
progress 15% @chr5:36170344, elapsed 0.2s, est remaining 1.1s, peak mem 90MB, user 0.1s, sys 0.5s, output queue size 4230
progress 20% @chr5:91153221, elapsed 0.3s, est remaining 1.1s, peak mem 108MB, user 0.1s, sys 0.8s, output queue size 6807
progress 25% @chr5:141192553, elapsed 0.3s, est remaining 1.0s, peak mem 114MB, user 0.1s, sys 1.0s, output queue size 9212
progress 30% @chr5:177304625, elapsed 0.4s, est remaining 0.9s, peak mem 120MB, user 0.2s, sys 1.1s, output queue size 11333
progress 35% @chr6:30948547, elapsed 0.5s, est remaining 0.9s, peak mem 135MB, user 0.2s, sys 1.3s, output queue size 13521
progress 40% @chr6:43640021, elapsed 0.5s, est remaining 0.8s, peak mem 141MB, user 0.3s, sys 1.5s, output queue size 16067
progress 45% @chr6:106560803, elapsed 0.6s, est remaining 0.8s, peak mem 150MB, user 0.3s, sys 1.8s, output queue size 18542
progress 50% @chr6:149597507, elapsed 0.7s, est remaining 0.7s, peak mem 156MB, user 0.3s, sys 2.0s, output queue size 20655
progress 55% @chr7:13911239, elapsed 0.8s, est remaining 0.6s, peak mem 168MB, user 0.4s, sys 2.2s, output queue size 22887
progress 60% @chr7:64260834, elapsed 0.8s, est remaining 0.5s, peak mem 180MB, user 0.4s, sys 2.3s, output queue size 24959
progress 65% @chr7:100951841, elapsed 0.9s, est remaining 0.5s, peak mem 186MB, user 0.5s, sys 2.6s, output queue size 27475
progress 70% @chr7:139345501, elapsed 1.0s, est remaining 0.4s, peak mem 189MB, user 0.5s, sys 2.8s, output queue size 29839
progress 75% @chr8:13102790, elapsed 1.0s, est remaining 0.3s, peak mem 192MB, user 0.5s, sys 3.0s, output queue size 31898
progress 80% @chr8:38827168, elapsed 1.1s, est remaining 0.3s, peak mem 204MB, user 0.5s, sys 3.1s, output queue size 33522
progress 85% @chrX:15546803, elapsed 1.2s, est remaining 0.2s, peak mem 219MB, user 0.6s, sys 3.3s, output queue size 36036
progress 90% @chrX:55002251, elapsed 1.2s, est remaining 0.1s, peak mem 222MB, user 0.6s, sys 3.5s, output queue size 38398
progress 95% @chrX:111713225, elapsed 1.3s, est remaining 0.1s, peak mem 231MB, user 0.6s, sys 3.7s, output queue size 40328
progress 100% @chrX:154311111, elapsed 1.4s, est remaining 0.0s, peak mem 234MB, user 0.7s, sys 3.9s, output queue size 42549
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
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: 74586803
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 0.011 sys 0.015 real
advance: 47638 calls 0.008 user 0.010 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 0.015 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 0.000 user 0.005 sys 2.280 real
fetch: 93348 calls 0.010 user 0.000 sys 0.015 real
fetch_ref: 93349 calls 0.165 user 0.103 sys 0.391 real
fetch_region: 1 calls 0.000 user 0.000 sys 0.000 real
idle: 39 calls 0.002 user 0.008 sys 23.479 real
init: 1 calls 0.023 user 0.023 sys 0.042 real
region: 93348 calls 0.003 user 0.006 sys 0.019 real
tracker: 93348 calls 0.021 user 0.013 sys 0.082 real
trim_region: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 245510144 mem 1.057 user 5.700 sys 3.399 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory