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% @chr21:44222913, elapsed 0.0s, est remaining 0.3s, peak mem 72MB, user 0.0s, sys 0.0s, output queue size 4
progress 10% @chr21:44231276, elapsed 0.0s, est remaining 0.4s, peak mem 93MB, user 0.2s, sys 0.0s, output queue size 39
progress 15% @chr21:44391272, elapsed 0.1s, est remaining 0.3s, peak mem 108MB, user 0.3s, sys 0.0s, output queue size 71
progress 20% @chr21:44527292, elapsed 0.1s, est remaining 0.2s, peak mem 111MB, user 0.4s, sys 0.0s, output queue size 98
progress 25% @chr21:44550691, elapsed 0.1s, est remaining 0.3s, peak mem 147MB, user 0.6s, sys 0.0s, output queue size 108
progress 31% @chr21:44224713, elapsed 0.1s, est remaining 0.2s, peak mem 150MB, user 0.6s, sys 0.0s, output queue size 109
progress 35% @chr21:44612101, elapsed 0.3s, est remaining 0.5s, peak mem 202MB, user 1.3s, sys 0.1s, output queue size 6
progress 40% @chr21:44627172, elapsed 0.3s, est remaining 0.4s, peak mem 202MB, user 2.1s, sys 0.1s, output queue size 29
progress 45% @chr21:45175730, elapsed 0.3s, est remaining 0.4s, peak mem 202MB, user 2.3s, sys 0.1s, output queue size 51
progress 50% @chr21:45468242, elapsed 0.3s, est remaining 0.3s, peak mem 202MB, user 2.6s, sys 0.1s, output queue size 74
progress 55% @chr21:45511111, elapsed 0.3s, est remaining 0.3s, peak mem 202MB, user 2.7s, sys 0.1s, output queue size 112
progress 60% @chr21:45986526, elapsed 0.3s, est remaining 0.2s, peak mem 205MB, user 3.2s, sys 0.2s, output queue size 30
progress 65% @chr21:46001961, elapsed 0.3s, est remaining 0.2s, peak mem 205MB, user 3.4s, sys 0.2s, output queue size 15
progress 70% @chr21:46168308, elapsed 0.4s, est remaining 0.2s, peak mem 208MB, user 3.6s, sys 0.2s, output queue size 24
progress 75% @chr21:46258939, elapsed 0.4s, est remaining 0.1s, peak mem 208MB, user 3.7s, sys 0.2s, output queue size 54
progress 80% @chr21:46125785, elapsed 0.4s, est remaining 0.1s, peak mem 208MB, user 4.0s, sys 0.2s, output queue size 84
progress 85% @chr21:46284068, elapsed 0.5s, est remaining 0.1s, peak mem 208MB, user 4.1s, sys 0.2s, output queue size 34
progress 90% @chr21:46440855, elapsed 0.5s, est remaining 0.1s, peak mem 208MB, user 4.2s, sys 0.2s, output queue size 24
progress 95% @chr21:46554169, elapsed 0.5s, est remaining 0.0s, peak mem 208MB, user 4.3s, sys 0.2s, output queue size 32
progress 100% @chr21:46602278, elapsed 0.5s, est remaining 0.0s, peak mem 208MB, user 4.4s, sys 0.2s, 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 384
algo: Haplotyper
license: sentieon:Haplotyper=12
input file size: 111697681
output file size: 38951
reads: 1322929
contig: 516 intervals 92221 bases
"assemble": 95 calls 0.141 user 0.001 sys 0.247 real
"assemble_addRead": 95 calls 0.000 user 0.000 sys 0.012 real
"assemble_buildGraph": 203 calls 0.064 user 0.000 sys 0.121 real
"assemble_computecigar": 140 calls 0.118 user 0.009 sys 0.151 real
"assemble_kg_build_calcsize": 203 calls 0.038 user 0.000 sys 0.072 real
"assemble_kg_build_clear": 262 calls 0.000 user 0.000 sys 0.005 real
"assemble_kg_build_prepare": 406 calls 0.019 user 0.000 sys 0.060 real
"assemble_kg_build_threading": 144 calls 0.026 user 0.000 sys 0.047 real
"assemble_kg_op1": 144 calls 0.020 user 0.001 sys 0.012 real
"assemble_kg_op2": 144 calls 0.000 user 0.000 sys 0.004 real
"assemble_kg_op3": 144 calls 0.000 user 0.000 sys 0.004 real
"assemble_sg_clean": 140 calls 0.002 user 0.000 sys 0.012 real
"assemble_sg_create": 140 calls 0.014 user 0.000 sys 0.016 real
"checkGraph": 95 calls 0.000 user 0.000 sys 0.000 real
"findHaplotype": 95 calls 0.118 user 0.009 sys 0.156 real
active: 1044 calls 0.000 user 0.000 sys 0.006 real
advance: 528 calls 1.046 user 0.054 sys 1.318 real
annotate: 106 calls 0.002 user 0.000 sys 0.010 real
assemble_region: 95 calls 0.259 user 0.010 sys 0.417 real
build_variants: 94 calls 0.000 user 0.000 sys 0.001 real
calc: 1044 calls 0.124 user 0.001 sys 0.114 real
calc_region: 94 calls 1.930 user 0.073 sys 2.084 real
call_region: 94 calls 0.002 user 0.000 sys 0.017 real
clip_region: 189 calls 0.015 user 0.000 sys 0.020 real
done: 1 calls 0.000 user 0.000 sys 0.002 real
execute: 1 calls 0.003 user 0.000 sys 0.484 real
fetch: 1044 calls 0.051 user 0.000 sys 0.049 real
fetch_db: 94 calls 0.013 user 0.000 sys 0.032 real
fetch_ref: 1139 calls 0.004 user 0.000 sys 0.005 real
fetch_region: 95 calls 0.010 user 0.000 sys 0.004 real
idle: 54 calls 0.063 user 0.000 sys 12.570 real
init: 1 calls 0.050 user 0.000 sys 0.044 real
pairhmm: 469 calls 2.978 user 0.099 sys 3.318 real
realign: 195 calls 0.145 user 0.000 sys 0.184 real
region: 1044 calls 3.110 user 0.110 sys 3.245 real
tracker: 1044 calls 0.000 user 0.000 sys 0.006 real
trim_region: 95 calls 0.013 user 0.000 sys 0.002 real
overall: 218783744 mem 5.448 user 0.236 sys 1.592 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory