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% @chr21:44258523, elapsed 0.0s, est remaining 0.5s, peak mem 81MB, user 0.1s, sys 0.0s, output queue size 5
progress 10% @chr21:44321729, elapsed 0.0s, est remaining 0.4s, peak mem 90MB, user 0.2s, sys 0.0s, output queue size 39
progress 15% @chr21:44399296, elapsed 0.1s, est remaining 0.5s, peak mem 102MB, user 0.4s, sys 0.0s, output queue size 71
progress 20% @chr21:44533685, elapsed 0.1s, est remaining 0.4s, peak mem 114MB, user 0.6s, sys 0.0s, output queue size 98
progress 25% @chr21:44550691, elapsed 0.4s, est remaining 1.2s, peak mem 195MB, user 1.1s, sys 0.1s, output queue size 108
progress 30% @chr21:44771377, elapsed 0.5s, est remaining 1.3s, peak mem 204MB, user 2.4s, sys 0.2s, output queue size 115
progress 35% @chr21:44873502, elapsed 0.6s, est remaining 1.1s, peak mem 204MB, user 3.6s, sys 0.2s, output queue size 134
progress 41% @chr21:44224713, elapsed 0.6s, est remaining 0.8s, peak mem 204MB, user 4.2s, sys 0.2s, output queue size 140
progress 45% @chr21:44573759, elapsed 0.6s, est remaining 0.7s, peak mem 204MB, user 4.7s, sys 0.2s, output queue size 49
progress 50% @chr21:45405379, elapsed 0.6s, est remaining 0.6s, peak mem 204MB, user 5.2s, sys 0.3s, output queue size 71
progress 55% @chr21:45494862, elapsed 0.6s, est remaining 0.5s, peak mem 204MB, user 5.4s, sys 0.3s, output queue size 106
progress 60% @chr21:44539302, elapsed 0.6s, est remaining 0.4s, peak mem 204MB, user 5.9s, sys 0.4s, output queue size 134
progress 65% @chr21:46116651, elapsed 0.7s, est remaining 0.4s, peak mem 204MB, user 6.3s, sys 0.4s, output queue size 12
progress 70% @chr21:46168308, elapsed 0.7s, est remaining 0.3s, peak mem 207MB, user 6.6s, sys 0.4s, output queue size 49
progress 75% @chr21:46244807, elapsed 0.8s, est remaining 0.3s, peak mem 207MB, user 7.0s, sys 0.4s, output queue size 14
progress 80% @chr21:46317208, elapsed 0.8s, est remaining 0.2s, peak mem 207MB, user 7.2s, sys 0.4s, output queue size 44
progress 85% @chr21:46284068, elapsed 0.8s, est remaining 0.1s, peak mem 207MB, user 7.3s, sys 0.4s, output queue size 66
progress 90% @chr21:46416069, elapsed 0.9s, est remaining 0.1s, peak mem 210MB, user 7.5s, sys 0.4s, output queue size 36
progress 95% @chr21:46550543, elapsed 0.9s, est remaining 0.0s, peak mem 210MB, user 7.8s, sys 0.5s, output queue size 19
progress 100% @chr21:46660833, elapsed 0.9s, est remaining 0.0s, peak mem 210MB, user 8.0s, sys 0.5s, output queue size 4
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 0.267 user 0.019 sys 0.396 real
"assemble_addRead": 89 calls 0.006 user 0.000 sys 0.018 real
"assemble_buildGraph": 199 calls 0.119 user 0.017 sys 0.205 real
"assemble_computecigar": 129 calls 0.204 user 0.009 sys 0.242 real
"assemble_kg_build_calcsize": 199 calls 0.092 user 0.008 sys 0.126 real
"assemble_kg_build_clear": 260 calls 0.000 user 0.000 sys 0.009 real
"assemble_kg_build_prepare": 398 calls 0.085 user 0.001 sys 0.102 real
"assemble_kg_build_threading": 138 calls 0.027 user 0.009 sys 0.074 real
"assemble_kg_op1": 138 calls 0.003 user 0.000 sys 0.017 real
"assemble_kg_op2": 138 calls 0.000 user 0.000 sys 0.005 real
"assemble_kg_op3": 138 calls 0.013 user 0.000 sys 0.004 real
"assemble_sg_clean": 129 calls 0.001 user 0.000 sys 0.016 real
"assemble_sg_create": 129 calls 0.014 user 0.001 sys 0.017 real
"checkGraph": 89 calls 0.000 user 0.000 sys 0.000 real
"findHaplotype": 89 calls 0.204 user 0.009 sys 0.251 real
active: 1044 calls 0.010 user 0.000 sys 0.005 real
advance: 528 calls 1.840 user 0.151 sys 2.201 real
annotate: 116 calls 0.007 user 0.000 sys 0.017 real
assemble_region: 89 calls 0.478 user 0.029 sys 0.666 real
build_variants: 88 calls 0.000 user 0.000 sys 0.001 real
calc: 1044 calls 0.189 user 0.006 sys 0.210 real
calc_region: 88 calls 3.278 user 0.230 sys 3.589 real
call_region: 88 calls 0.011 user 0.001 sys 0.031 real
clip_region: 177 calls 0.036 user 0.000 sys 0.034 real
done: 1 calls 0.000 user 0.000 sys 0.002 real
execute: 1 calls 0.005 user 0.000 sys 0.901 real
fetch: 1044 calls 0.128 user 0.001 sys 0.134 real
fetch_db: 88 calls 0.034 user 0.000 sys 0.033 real
fetch_ref: 1133 calls 0.009 user 0.000 sys 0.007 real
fetch_region: 89 calls 0.011 user 0.000 sys 0.009 real
idle: 43 calls 0.029 user 0.000 sys 12.661 real
init: 1 calls 0.056 user 0.000 sys 0.056 real
pairhmm: 815 calls 6.301 user 0.296 sys 6.753 real
realign: 246 calls 0.246 user 0.001 sys 0.355 real
region: 1044 calls 5.696 user 0.278 sys 6.085 real
tracker: 1044 calls 0.010 user 0.000 sys 0.004 real
trim_region: 89 calls 0.000 user 0.000 sys 0.003 real
overall: 220393472 mem 10.079 user 0.591 sys 2.039 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory