cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -r Homo_sapiens_assembly38.fasta -t 12 --interval chr21_44120631-44120778.bed.gz -i Sig_18_Blood.recalibrated.bam --algo Haplotyper -d dbsnp_146.hg38.vcf.gz --emit_mode variant Sig_18_Blood.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 81MB, user 0.1s, sys 0.0s, output queue size 2
progress 10% @chr21:44316244, elapsed 0.0s, est remaining 0.3s, peak mem 90MB, user 0.2s, sys 0.0s, output queue size 39
progress 15% @chr21:44401681, elapsed 0.1s, est remaining 0.3s, peak mem 111MB, user 0.3s, sys 0.0s, output queue size 71
progress 20% @chr21:44533685, elapsed 0.1s, est remaining 0.3s, peak mem 120MB, user 0.5s, sys 0.0s, output queue size 98
progress 25% @chr21:44550691, elapsed 0.1s, est remaining 0.3s, peak mem 177MB, user 0.6s, sys 0.0s, output queue size 108
progress 30% @chr21:44646459, elapsed 0.4s, est remaining 0.9s, peak mem 225MB, user 1.6s, sys 0.1s, output queue size 115
progress 35% @chr21:44558050, elapsed 0.4s, est remaining 0.8s, peak mem 225MB, user 2.3s, sys 0.1s, output queue size 141
progress 40% @chr21:44900320, elapsed 0.5s, est remaining 0.7s, peak mem 225MB, user 3.2s, sys 0.1s, output queue size 159
progress 48% @chr21:44224713, elapsed 0.5s, est remaining 0.5s, peak mem 225MB, user 3.8s, sys 0.1s, output queue size 172
progress 50% @chr21:45468242, elapsed 0.5s, est remaining 0.5s, peak mem 225MB, user 4.2s, sys 0.1s, output queue size 73
progress 55% @chr21:45455531, elapsed 0.5s, est remaining 0.4s, peak mem 231MB, user 4.6s, sys 0.2s, output queue size 33
progress 60% @chr21:45917588, elapsed 0.5s, est remaining 0.3s, peak mem 234MB, user 4.7s, sys 0.2s, output queue size 24
progress 65% @chr21:46118614, elapsed 0.5s, est remaining 0.3s, peak mem 234MB, user 5.0s, sys 0.2s, output queue size 11
progress 70% @chr21:46161916, elapsed 0.6s, est remaining 0.2s, peak mem 237MB, user 5.2s, sys 0.2s, output queue size 32
progress 75% @chr21:46246307, elapsed 0.6s, est remaining 0.2s, peak mem 237MB, user 5.7s, sys 0.2s, output queue size 54
progress 80% @chr21:46315474, elapsed 0.6s, est remaining 0.2s, peak mem 237MB, user 5.9s, sys 0.2s, output queue size 10
progress 85% @chr21:46284068, elapsed 0.6s, est remaining 0.1s, peak mem 237MB, user 6.0s, sys 0.2s, output queue size 35
progress 90% @chr21:46459132, elapsed 0.7s, est remaining 0.1s, peak mem 237MB, user 6.1s, sys 0.2s, output queue size 35
progress 95% @chr21:46431529, elapsed 0.7s, est remaining 0.0s, peak mem 237MB, user 6.4s, sys 0.2s, output queue size 33
progress 100% @chr21:46549771, elapsed 0.7s, est remaining 0.0s, peak mem 237MB, user 6.6s, sys 0.2s, output queue size 29
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: 208827488
output file size: 38078
reads: 2481283
contig: 516 intervals 92221 bases
"assemble": 89 calls 0.219 user 0.021 sys 0.313 real
"assemble_addRead": 89 calls 0.000 user 0.000 sys 0.014 real
"assemble_buildGraph": 199 calls 0.102 user 0.002 sys 0.160 real
"assemble_computecigar": 129 calls 0.166 user 0.020 sys 0.201 real
"assemble_kg_build_calcsize": 199 calls 0.071 user 0.002 sys 0.099 real
"assemble_kg_build_clear": 260 calls 0.000 user 0.000 sys 0.007 real
"assemble_kg_build_prepare": 398 calls 0.050 user 0.017 sys 0.080 real
"assemble_kg_build_threading": 138 calls 0.031 user 0.000 sys 0.058 real
"assemble_kg_op1": 138 calls 0.042 user 0.001 sys 0.014 real
"assemble_kg_op2": 138 calls 0.000 user 0.000 sys 0.005 real
"assemble_kg_op3": 138 calls 0.000 user 0.000 sys 0.004 real
"assemble_sg_clean": 129 calls 0.010 user 0.000 sys 0.013 real
"assemble_sg_create": 129 calls 0.000 user 0.000 sys 0.015 real
"checkGraph": 89 calls 0.000 user 0.000 sys 0.000 real
"findHaplotype": 89 calls 0.176 user 0.021 sys 0.208 real
active: 1044 calls 0.000 user 0.000 sys 0.003 real
advance: 528 calls 1.396 user 0.099 sys 1.758 real
annotate: 116 calls 0.000 user 0.000 sys 0.012 real
assemble_region: 89 calls 0.395 user 0.042 sys 0.537 real
build_variants: 88 calls 0.000 user 0.000 sys 0.001 real
calc: 1044 calls 0.085 user 0.000 sys 0.154 real
calc_region: 88 calls 3.103 user 0.021 sys 3.167 real
call_region: 88 calls 0.000 user 0.000 sys 0.022 real
clip_region: 177 calls 0.021 user 0.000 sys 0.025 real
done: 1 calls 0.000 user 0.000 sys 0.002 real
execute: 1 calls 0.002 user 0.002 sys 0.719 real
fetch: 1044 calls 0.085 user 0.001 sys 0.071 real
fetch_db: 88 calls 0.010 user 0.000 sys 0.027 real
fetch_ref: 1133 calls 0.014 user 0.001 sys 0.005 real
fetch_region: 89 calls 0.000 user 0.000 sys 0.006 real
idle: 44 calls 0.045 user 0.000 sys 12.440 real
init: 1 calls 0.020 user 0.020 sys 0.042 real
pairhmm: 815 calls 5.161 user 0.033 sys 5.416 real
realign: 246 calls 0.265 user 0.000 sys 0.296 real
region: 1044 calls 4.950 user 0.073 sys 5.071 real
tracker: 1044 calls 0.000 user 0.000 sys 0.003 real
trim_region: 89 calls 0.000 user 0.000 sys 0.002 real
overall: 248647680 mem 8.261 user 0.250 sys 1.823 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory