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 0.4s, peak mem 78MB, user 0.1s, sys 0.0s, output queue size 3
progress 10% @chr21:44321729, elapsed 0.0s, est remaining 0.3s, peak mem 90MB, user 0.2s, sys 0.0s, output queue size 40
progress 15% @chr21:44401681, elapsed 0.1s, est remaining 0.4s, peak mem 108MB, user 0.3s, sys 0.0s, output queue size 70
progress 20% @chr21:44533685, elapsed 0.1s, est remaining 0.3s, peak mem 120MB, user 0.5s, sys 0.0s, output queue size 99
progress 25% @chr21:44550691, elapsed 0.3s, est remaining 1.0s, peak mem 219MB, user 1.1s, sys 0.0s, output queue size 108
progress 30% @chr21:44646459, elapsed 0.4s, est remaining 0.9s, peak mem 225MB, user 2.1s, sys 0.0s, output queue size 114
progress 36% @chr21:44224713, elapsed 0.4s, est remaining 0.7s, peak mem 225MB, user 2.8s, sys 0.1s, output queue size 116
progress 40% @chr21:44681833, elapsed 0.5s, est remaining 0.7s, peak mem 225MB, user 3.3s, sys 0.1s, output queue size 30
progress 45% @chr21:44943684, elapsed 0.5s, est remaining 0.6s, peak mem 225MB, user 4.4s, sys 0.1s, output queue size 44
progress 50% @chr21:45267451, elapsed 0.5s, est remaining 0.5s, peak mem 225MB, user 4.9s, sys 0.1s, output queue size 51
progress 55% @chr21:45455531, elapsed 0.5s, est remaining 0.4s, peak mem 225MB, user 5.1s, sys 0.1s, output queue size 24
progress 60% @chr21:45930786, elapsed 0.5s, est remaining 0.3s, peak mem 225MB, user 5.2s, sys 0.1s, output queue size 22
progress 65% @chr21:46121556, elapsed 0.5s, est remaining 0.3s, peak mem 228MB, user 5.5s, sys 0.1s, output queue size 12
progress 70% @chr21:46131954, elapsed 0.6s, est remaining 0.2s, peak mem 231MB, user 5.8s, sys 0.1s, output queue size 23
progress 75% @chr21:46258939, elapsed 0.6s, est remaining 0.2s, peak mem 231MB, user 6.2s, sys 0.1s, output queue size 13
progress 80% @chr21:46315474, elapsed 0.6s, est remaining 0.2s, peak mem 231MB, user 6.4s, sys 0.1s, output queue size 10
progress 85% @chr21:46411189, elapsed 0.6s, est remaining 0.1s, peak mem 231MB, user 6.5s, sys 0.1s, output queue size 37
progress 90% @chr21:46442497, elapsed 0.7s, est remaining 0.1s, peak mem 234MB, user 6.6s, sys 0.1s, output queue size 35
progress 95% @chr21:46546915, elapsed 0.7s, est remaining 0.0s, peak mem 234MB, user 7.1s, sys 0.1s, output queue size 31
progress 100% @chr21:46664295, elapsed 0.7s, est remaining 0.0s, peak mem 234MB, user 7.2s, sys 0.1s, output queue size 3
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 0.204 user 0.000 sys 0.307 real
"assemble_addRead": 89 calls 0.009 user 0.000 sys 0.014 real
"assemble_buildGraph": 199 calls 0.129 user 0.000 sys 0.159 real
"assemble_computecigar": 129 calls 0.167 user 0.005 sys 0.199 real
"assemble_kg_build_calcsize": 199 calls 0.078 user 0.000 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 0.025 user 0.000 sys 0.077 real
"assemble_kg_build_threading": 138 calls 0.051 user 0.000 sys 0.057 real
"assemble_kg_op1": 138 calls 0.002 user 0.000 sys 0.013 real
"assemble_kg_op2": 138 calls 0.002 user 0.000 sys 0.005 real
"assemble_kg_op3": 138 calls 0.006 user 0.000 sys 0.004 real
"assemble_sg_clean": 129 calls 0.000 user 0.000 sys 0.013 real
"assemble_sg_create": 129 calls 0.016 user 0.000 sys 0.015 real
"checkGraph": 89 calls 0.000 user 0.000 sys 0.000 real
"findHaplotype": 89 calls 0.177 user 0.005 sys 0.206 real
active: 1044 calls 0.000 user 0.000 sys 0.003 real
advance: 528 calls 1.619 user 0.051 sys 1.783 real
annotate: 116 calls 0.020 user 0.000 sys 0.011 real
assemble_region: 89 calls 0.390 user 0.005 sys 0.528 real
build_variants: 88 calls 0.000 user 0.000 sys 0.001 real
calc: 1044 calls 0.135 user 0.004 sys 0.152 real
calc_region: 88 calls 3.215 user 0.042 sys 3.321 real
call_region: 88 calls 0.020 user 0.000 sys 0.022 real
clip_region: 177 calls 0.000 user 0.000 sys 0.023 real
done: 1 calls 0.000 user 0.000 sys 0.002 real
execute: 1 calls 0.001 user 0.000 sys 0.714 real
fetch: 1044 calls 0.149 user 0.000 sys 0.068 real
fetch_db: 88 calls 0.014 user 0.000 sys 0.026 real
fetch_ref: 1133 calls 0.015 user 0.000 sys 0.005 real
fetch_region: 89 calls 0.000 user 0.000 sys 0.006 real
idle: 44 calls 0.020 user 0.000 sys 12.475 real
init: 1 calls 0.038 user 0.012 sys 0.041 real
pairhmm: 815 calls 4.832 user 0.043 sys 5.393 real
realign: 246 calls 0.359 user 0.000 sys 0.294 real
region: 1044 calls 5.254 user 0.056 sys 5.374 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: 245542912 mem 8.330 user 0.149 sys 1.817 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory