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% @chr21:44254617, elapsed 0.0s, est remaining 0.4s, peak mem 91MB, user 0.1s, sys 0.0s, output queue size 1
progress 10% @chr21:44289657, elapsed 0.0s, est remaining 0.4s, peak mem 99MB, user 0.3s, sys 0.0s, output queue size 39
progress 15% @chr21:44397747, elapsed 0.1s, est remaining 0.5s, peak mem 126MB, user 0.5s, sys 0.1s, output queue size 70
progress 20% @chr21:44533685, elapsed 0.1s, est remaining 0.4s, peak mem 136MB, user 0.6s, sys 0.1s, output queue size 99
progress 26% @chr21:44591387, elapsed 0.5s, est remaining 1.3s, peak mem 225MB, user 1.2s, sys 0.1s, output queue size 108
progress 30% @chr21:44627172, elapsed 0.6s, est remaining 1.5s, peak mem 243MB, user 3.0s, sys 0.1s, output queue size 114
progress 35% @chr21:44711433, elapsed 0.6s, est remaining 1.2s, peak mem 243MB, user 5.3s, sys 0.1s, output queue size 127
progress 42% @chr21:44224713, elapsed 0.6s, est remaining 0.9s, peak mem 243MB, user 6.3s, sys 0.2s, output queue size 129
progress 45% @chr21:44943684, elapsed 0.7s, est remaining 0.8s, peak mem 243MB, user 6.4s, sys 0.3s, output queue size 43
progress 50% @chr21:45267451, elapsed 0.7s, est remaining 0.7s, peak mem 243MB, user 7.1s, sys 0.3s, output queue size 21
progress 55% @chr21:45455531, elapsed 0.7s, est remaining 0.6s, peak mem 243MB, user 7.3s, sys 0.3s, output queue size 25
progress 60% @chr21:45930786, elapsed 0.7s, est remaining 0.5s, peak mem 243MB, user 7.4s, sys 0.3s, output queue size 23
progress 65% @chr21:46122108, elapsed 0.7s, est remaining 0.4s, peak mem 243MB, user 7.8s, sys 0.3s, output queue size 12
progress 70% @chr21:46161379, elapsed 0.8s, est remaining 0.3s, peak mem 243MB, user 8.1s, sys 0.3s, output queue size 21
progress 75% @chr21:46244807, elapsed 0.9s, est remaining 0.3s, peak mem 243MB, user 8.5s, sys 0.3s, output queue size 15
progress 80% @chr21:46297539, elapsed 0.9s, est remaining 0.2s, peak mem 243MB, user 8.6s, sys 0.3s, output queue size 10
progress 85% @chr21:46284068, elapsed 0.9s, est remaining 0.2s, peak mem 243MB, user 8.8s, sys 0.3s, output queue size 32
progress 90% @chr21:46440083, elapsed 0.9s, est remaining 0.1s, peak mem 243MB, user 8.9s, sys 0.3s, output queue size 34
progress 95% @chr21:46554575, elapsed 1.0s, est remaining 0.1s, peak mem 246MB, user 9.4s, sys 0.3s, output queue size 68
progress 100% @chr21:46660833, elapsed 1.0s, est remaining 0.0s, peak mem 246MB, user 9.7s, sys 0.3s, output queue size 3
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
cpu vendor: GenuineIntel
 signature: 000c06f2
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: INTEL(R) XEON(R) PLATINUM 8559C
threads: 12 max 192
algo: Haplotyper
license: sentieon:Haplotyper=12
input file size: 208827488
output file size: 38079
reads: 2481283
contig: 516 intervals 92221 bases
"assemble": 89 calls 0.295 user 0.032 sys 0.444 real
"assemble_addRead": 89 calls 0.020 user 0.000 sys 0.017 real
"assemble_buildGraph": 199 calls 0.130 user 0.019 sys 0.234 real
"assemble_computecigar": 129 calls 0.239 user 0.030 sys 0.280 real
"assemble_kg_build_calcsize": 199 calls 0.115 user 0.010 sys 0.148 real
"assemble_kg_build_clear": 260 calls 0.000 user 0.000 sys 0.010 real
"assemble_kg_build_prepare": 398 calls 0.084 user 0.006 sys 0.110 real
"assemble_kg_build_threading": 138 calls 0.015 user 0.008 sys 0.081 real
"assemble_kg_op1": 138 calls 0.030 user 0.000 sys 0.019 real
"assemble_kg_op2": 138 calls 0.000 user 0.000 sys 0.006 real
"assemble_kg_op3": 138 calls 0.012 user 0.000 sys 0.005 real
"assemble_sg_clean": 129 calls 0.008 user 0.007 sys 0.018 real
"assemble_sg_create": 129 calls 0.021 user 0.000 sys 0.021 real
"checkGraph": 89 calls 0.000 user 0.000 sys 0.000 real
"findHaplotype": 89 calls 0.239 user 0.030 sys 0.291 real
active: 1044 calls 0.010 user 0.000 sys 0.005 real
advance: 528 calls 2.173 user 0.080 sys 2.445 real
annotate: 116 calls 0.011 user 0.000 sys 0.016 real
assemble_region: 89 calls 0.555 user 0.062 sys 0.753 real
build_variants: 88 calls 0.000 user 0.000 sys 0.001 real
calc: 1044 calls 0.264 user 0.007 sys 0.274 real
calc_region: 88 calls 4.220 user 0.144 sys 4.448 real
call_region: 88 calls 0.033 user 0.000 sys 0.030 real
clip_region: 177 calls 0.027 user 0.000 sys 0.033 real
done: 1 calls 0.000 user 0.000 sys 0.002 real
execute: 1 calls 0.001 user 0.000 sys 1.016 real
fetch: 1044 calls 0.068 user 0.000 sys 0.105 real
fetch_db: 88 calls 0.015 user 0.000 sys 0.036 real
fetch_ref: 1133 calls 0.008 user 0.004 sys 0.006 real
fetch_region: 89 calls 0.020 user 0.000 sys 0.008 real
idle: 42 calls 0.021 user 0.001 sys 12.589 real
init: 1 calls 0.038 user 0.019 sys 0.052 real
pairhmm: 815 calls 7.408 user 0.121 sys 7.739 real
realign: 246 calls 0.309 user 0.000 sys 0.393 real
region: 1044 calls 7.163 user 0.185 sys 7.462 real
tracker: 1044 calls 0.005 user 0.004 sys 0.005 real
trim_region: 89 calls 0.000 user 0.000 sys 0.004 real
overall: 258215936 mem 11.697 user 0.379 sys 2.146 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory