cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -r Homo_sapiens_assembly38.fasta -t 12 --interval chr21_44120631-44120778.bed.gz -i HCC1395_BL.recalibrated.bam --algo Haplotyper -d dbsnp_146.hg38.vcf.gz --emit_mode variant HCC1395_BL.haplotyper.chr21_44120631-44120778.bed.unfiltered.vcf.gz
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr21:44222913, elapsed 0.0s, est remaining 0.3s, peak mem 75MB, user 0.0s, sys 0.0s, output queue size 3
progress 10% @chr21:44289657, elapsed 0.0s, est remaining 0.4s, peak mem 87MB, user 0.2s, sys 0.0s, output queue size 38
progress 15% @chr21:44382718, elapsed 0.1s, est remaining 0.3s, peak mem 105MB, user 0.4s, sys 0.0s, output queue size 71
progress 20% @chr21:44456645, elapsed 0.1s, est remaining 0.2s, peak mem 111MB, user 0.4s, sys 0.1s, output queue size 97
progress 26% @chr21:44591387, elapsed 0.1s, est remaining 0.2s, peak mem 144MB, user 0.4s, sys 0.1s, output queue size 108
progress 30% @chr21:44579763, elapsed 0.2s, est remaining 0.5s, peak mem 198MB, user 0.9s, sys 0.1s, output queue size 119
progress 38% @chr21:44224713, elapsed 0.2s, est remaining 0.4s, peak mem 198MB, user 1.4s, sys 0.1s, output queue size 130
progress 40% @chr21:44813862, elapsed 0.2s, est remaining 0.4s, peak mem 198MB, user 1.6s, sys 0.1s, output queue size 29
progress 45% @chr21:44967034, elapsed 0.2s, est remaining 0.3s, peak mem 198MB, user 2.1s, sys 0.1s, output queue size 50
progress 50% @chr21:45287741, elapsed 0.3s, est remaining 0.3s, peak mem 198MB, user 2.4s, sys 0.1s, output queue size 68
progress 55% @chr21:45455531, elapsed 0.3s, est remaining 0.2s, peak mem 198MB, user 2.6s, sys 0.2s, output queue size 28
progress 60% @chr21:45986526, elapsed 0.3s, est remaining 0.2s, peak mem 198MB, user 2.8s, sys 0.2s, output queue size 29
progress 65% @chr21:46001961, elapsed 0.3s, est remaining 0.2s, peak mem 198MB, user 3.0s, sys 0.2s, output queue size 15
progress 70% @chr21:46206672, elapsed 0.3s, est remaining 0.1s, peak mem 201MB, user 3.2s, sys 0.2s, output queue size 24
progress 75% @chr21:46246628, elapsed 0.3s, est remaining 0.1s, peak mem 201MB, user 3.3s, sys 0.2s, output queue size 53
progress 80% @chr21:46314716, elapsed 0.4s, est remaining 0.1s, peak mem 201MB, user 3.7s, sys 0.2s, output queue size 84
progress 85% @chr21:46401551, elapsed 0.4s, est remaining 0.1s, peak mem 201MB, user 3.9s, sys 0.2s, output queue size 31
progress 90% @chr21:46440855, elapsed 0.4s, est remaining 0.0s, peak mem 201MB, user 4.0s, sys 0.2s, output queue size 25
progress 95% @chr21:46431529, elapsed 0.4s, est remaining 0.0s, peak mem 201MB, user 4.0s, sys 0.2s, output queue size 52
progress 100% @chr21:46602278, elapsed 0.5s, est remaining 0.0s, peak mem 201MB, user 4.2s, sys 0.2s, output queue size 11
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: 163002590
output file size: 38710
reads: 1955548
contig: 516 intervals 92221 bases
"assemble": 96 calls 0.073 user 0.009 sys 0.233 real
"assemble_addRead": 96 calls 0.010 user 0.000 sys 0.010 real
"assemble_buildGraph": 205 calls 0.032 user 0.000 sys 0.118 real
"assemble_computecigar": 140 calls 0.092 user 0.005 sys 0.148 real
"assemble_kg_build_calcsize": 205 calls 0.014 user 0.000 sys 0.069 real
"assemble_kg_build_clear": 265 calls 0.000 user 0.000 sys 0.005 real
"assemble_kg_build_prepare": 410 calls 0.019 user 0.009 sys 0.054 real
"assemble_kg_build_threading": 145 calls 0.018 user 0.000 sys 0.047 real
"assemble_kg_op1": 145 calls 0.008 user 0.000 sys 0.011 real
"assemble_kg_op2": 145 calls 0.000 user 0.000 sys 0.003 real
"assemble_kg_op3": 145 calls 0.006 user 0.000 sys 0.003 real
"assemble_sg_clean": 140 calls 0.007 user 0.000 sys 0.012 real
"assemble_sg_create": 140 calls 0.001 user 0.000 sys 0.016 real
"checkGraph": 96 calls 0.000 user 0.000 sys 0.000 real
"findHaplotype": 96 calls 0.112 user 0.005 sys 0.153 real
active: 1044 calls 0.000 user 0.000 sys 0.003 real
advance: 528 calls 1.364 user 0.093 sys 1.495 real
annotate: 105 calls 0.000 user 0.000 sys 0.010 real
assemble_region: 96 calls 0.195 user 0.014 sys 0.397 real
build_variants: 95 calls 0.005 user 0.000 sys 0.001 real
calc: 1044 calls 0.067 user 0.000 sys 0.138 real
calc_region: 95 calls 1.596 user 0.021 sys 1.723 real
call_region: 95 calls 0.000 user 0.000 sys 0.017 real
clip_region: 191 calls 0.001 user 0.000 sys 0.019 real
done: 1 calls 0.000 user 0.000 sys 0.002 real
execute: 1 calls 0.007 user 0.000 sys 0.470 real
fetch: 1044 calls 0.064 user 0.000 sys 0.061 real
fetch_db: 95 calls 0.033 user 0.002 sys 0.031 real
fetch_ref: 1140 calls 0.003 user 0.000 sys 0.008 real
fetch_region: 96 calls 0.000 user 0.000 sys 0.004 real
idle: 56 calls 0.059 user 0.000 sys 12.535 real
init: 1 calls 0.040 user 0.000 sys 0.042 real
pairhmm: 430 calls 2.548 user 0.018 sys 2.866 real
realign: 197 calls 0.118 user 0.001 sys 0.179 real
region: 1044 calls 2.624 user 0.061 sys 2.805 real
tracker: 1044 calls 0.000 user 0.000 sys 0.003 real
trim_region: 96 calls 0.000 user 0.000 sys 0.002 real
overall: 210931712 mem 5.199 user 0.198 sys 1.575 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory