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.recal.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% @chr21:44249026, elapsed 0.0s, est remaining 0.4s, peak mem 79MB, user 0.0s, sys 0.0s, output queue size 9
progress 10% @chr21:44321729, elapsed 0.0s, est remaining 0.4s, peak mem 102MB, user 0.1s, sys 0.0s, output queue size 39
progress 15% @chr21:44395414, elapsed 0.1s, est remaining 0.3s, peak mem 112MB, user 0.2s, sys 0.0s, output queue size 70
progress 20% @chr21:44527292, elapsed 0.1s, est remaining 0.3s, peak mem 121MB, user 0.3s, sys 0.0s, output queue size 98
progress 25% @chr21:44550691, elapsed 0.1s, est remaining 0.2s, peak mem 154MB, user 0.4s, sys 0.0s, output queue size 108
progress 31% @chr21:44224713, elapsed 0.1s, est remaining 0.2s, peak mem 162MB, user 0.5s, sys 0.0s, output queue size 109
progress 35% @chr21:44646459, elapsed 0.2s, est remaining 0.4s, peak mem 205MB, user 0.8s, sys 0.0s, output queue size 7
progress 40% @chr21:44627172, elapsed 0.3s, est remaining 0.4s, peak mem 205MB, user 1.6s, sys 0.0s, output queue size 31
progress 45% @chr21:44893404, elapsed 0.3s, est remaining 0.3s, peak mem 205MB, user 2.1s, sys 0.0s, output queue size 50
progress 50% @chr21:45222018, elapsed 0.3s, est remaining 0.3s, peak mem 205MB, user 2.3s, sys 0.0s, output queue size 71
progress 55% @chr21:45493501, elapsed 0.3s, est remaining 0.2s, peak mem 205MB, user 2.7s, sys 0.0s, output queue size 27
progress 60% @chr21:45986944, elapsed 0.3s, est remaining 0.2s, peak mem 205MB, user 2.8s, sys 0.0s, output queue size 30
progress 65% @chr21:46121556, elapsed 0.3s, est remaining 0.2s, peak mem 205MB, user 3.0s, sys 0.0s, output queue size 12
progress 70% @chr21:46168308, elapsed 0.3s, est remaining 0.1s, peak mem 209MB, user 3.1s, sys 0.0s, output queue size 22
progress 75% @chr21:46246628, elapsed 0.3s, est remaining 0.1s, peak mem 209MB, user 3.2s, sys 0.0s, output queue size 53
progress 80% @chr21:46334397, elapsed 0.4s, est remaining 0.1s, peak mem 209MB, user 3.4s, sys 0.0s, output queue size 84
progress 85% @chr21:46402331, elapsed 0.4s, est remaining 0.1s, peak mem 209MB, user 3.6s, sys 0.0s, output queue size 22
progress 90% @chr21:46445284, elapsed 0.4s, est remaining 0.0s, peak mem 209MB, user 3.7s, sys 0.0s, output queue size 26
progress 95% @chr21:46563858, elapsed 0.4s, est remaining 0.0s, peak mem 209MB, user 3.8s, sys 0.0s, output queue size 57
progress 100% @chr21:46602278, elapsed 0.5s, est remaining 0.0s, peak mem 209MB, user 3.9s, sys 0.0s, output queue size 11
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: 1f8bfbff fffab20b
  extended: f1bf27eb 1b407f7e
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 12 max 192
algo: Haplotyper
license: sentieon:Haplotyper=12
input file size: 111697681
output file size: 38952
reads: 1322929
contig: 516 intervals 92221 bases
"assemble": 95 calls 0.135 user 0.003 sys 0.218 real
"assemble_addRead": 95 calls 0.002 user 0.000 sys 0.009 real
"assemble_buildGraph": 203 calls 0.056 user 0.003 sys 0.109 real
"assemble_computecigar": 140 calls 0.087 user 0.006 sys 0.138 real
"assemble_kg_build_calcsize": 203 calls 0.040 user 0.003 sys 0.065 real
"assemble_kg_build_clear": 262 calls 0.000 user 0.000 sys 0.004 real
"assemble_kg_build_prepare": 406 calls 0.057 user 0.000 sys 0.050 real
"assemble_kg_build_threading": 144 calls 0.015 user 0.000 sys 0.042 real
"assemble_kg_op1": 144 calls 0.000 user 0.000 sys 0.010 real
"assemble_kg_op2": 144 calls 0.010 user 0.000 sys 0.003 real
"assemble_kg_op3": 144 calls 0.000 user 0.000 sys 0.003 real
"assemble_sg_clean": 140 calls 0.010 user 0.000 sys 0.012 real
"assemble_sg_create": 140 calls 0.002 user 0.000 sys 0.015 real
"checkGraph": 95 calls 0.000 user 0.000 sys 0.000 real
"findHaplotype": 95 calls 0.091 user 0.006 sys 0.142 real
active: 1044 calls 0.000 user 0.000 sys 0.005 real
advance: 528 calls 1.061 user 0.009 sys 1.245 real
annotate: 106 calls 0.007 user 0.000 sys 0.009 real
assemble_region: 95 calls 0.227 user 0.009 sys 0.371 real
build_variants: 94 calls 0.000 user 0.000 sys 0.000 real
calc: 1044 calls 0.091 user 0.000 sys 0.109 real
calc_region: 94 calls 1.807 user 0.013 sys 1.972 real
call_region: 94 calls 0.007 user 0.000 sys 0.015 real
clip_region: 189 calls 0.046 user 0.000 sys 0.018 real
done: 1 calls 0.000 user 0.000 sys 0.002 real
execute: 1 calls 0.001 user 0.000 sys 0.462 real
fetch: 1044 calls 0.037 user 0.000 sys 0.047 real
fetch_db: 94 calls 0.039 user 0.001 sys 0.029 real
fetch_ref: 1139 calls 0.026 user 0.000 sys 0.005 real
fetch_region: 95 calls 0.001 user 0.000 sys 0.003 real
idle: 34 calls 0.037 user 0.000 sys 12.103 real
init: 1 calls 0.049 user 0.001 sys 0.042 real
pairhmm: 469 calls 2.741 user 0.000 sys 3.041 real
realign: 195 calls 0.116 user 0.000 sys 0.176 real
region: 1044 calls 2.676 user 0.022 sys 2.744 real
tracker: 1044 calls 0.002 user 0.000 sys 0.006 real
trim_region: 95 calls 0.000 user 0.000 sys 0.002 real
overall: 219430912 mem 5.187 user 0.069 sys 1.604 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory