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.recalibrated.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% @chr21:44254617, elapsed 0.0s, est remaining 0.2s, peak mem 84MB, user 0.0s, sys 0.0s, output queue size 1
progress 10% @chr21:44322133, elapsed 0.0s, est remaining 0.4s, peak mem 109MB, user 0.2s, sys 0.0s, output queue size 39
progress 15% @chr21:44330463, elapsed 0.1s, est remaining 0.3s, peak mem 124MB, user 0.3s, sys 0.0s, output queue size 70
progress 20% @chr21:44456645, elapsed 0.1s, est remaining 0.2s, peak mem 127MB, user 0.4s, sys 0.0s, output queue size 99
progress 25% @chr21:44550691, elapsed 0.1s, est remaining 0.2s, peak mem 138MB, user 0.5s, sys 0.0s, output queue size 108
progress 33% @chr21:44224713, elapsed 0.1s, est remaining 0.2s, peak mem 160MB, user 0.6s, sys 0.0s, output queue size 111
progress 35% @chr21:44697202, elapsed 0.1s, est remaining 0.2s, peak mem 163MB, user 0.7s, sys 0.0s, output queue size 7
progress 40% @chr21:44579763, elapsed 0.2s, est remaining 0.3s, peak mem 216MB, user 1.4s, sys 0.0s, output queue size 29
progress 45% @chr21:44906915, elapsed 0.2s, est remaining 0.3s, peak mem 216MB, user 1.8s, sys 0.0s, output queue size 51
progress 50% @chr21:44573759, elapsed 0.2s, est remaining 0.2s, peak mem 216MB, user 2.0s, sys 0.0s, output queue size 73
progress 55% @chr21:45505358, elapsed 0.3s, est remaining 0.2s, peak mem 216MB, user 2.1s, sys 0.0s, output queue size 107
progress 60% @chr21:45986944, elapsed 0.3s, est remaining 0.2s, peak mem 216MB, user 2.4s, sys 0.0s, output queue size 29
progress 65% @chr21:46121556, elapsed 0.3s, est remaining 0.2s, peak mem 216MB, user 2.6s, sys 0.0s, output queue size 11
progress 70% @chr21:46131954, elapsed 0.3s, est remaining 0.1s, peak mem 220MB, user 2.8s, sys 0.0s, output queue size 21
progress 75% @chr21:46244807, elapsed 0.3s, est remaining 0.1s, peak mem 220MB, user 2.9s, sys 0.0s, output queue size 53
progress 80% @chr21:46326377, elapsed 0.4s, est remaining 0.1s, peak mem 220MB, user 3.2s, sys 0.1s, output queue size 10
progress 85% @chr21:46389199, elapsed 0.4s, est remaining 0.1s, peak mem 220MB, user 3.3s, sys 0.1s, output queue size 24
progress 90% @chr21:46440083, elapsed 0.4s, est remaining 0.0s, peak mem 220MB, user 3.4s, sys 0.1s, output queue size 24
progress 95% @chr21:46546915, elapsed 0.4s, est remaining 0.0s, peak mem 220MB, user 3.5s, sys 0.1s, output queue size 31
progress 100% @chr21:46602278, elapsed 0.4s, est remaining 0.0s, peak mem 220MB, user 3.6s, sys 0.1s, 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: 163002590
output file size: 38710
reads: 1955548
contig: 516 intervals 92221 bases
"assemble": 96 calls 0.142 user 0.002 sys 0.217 real
"assemble_addRead": 96 calls 0.005 user 0.000 sys 0.009 real
"assemble_buildGraph": 205 calls 0.087 user 0.002 sys 0.109 real
"assemble_computecigar": 140 calls 0.068 user 0.013 sys 0.136 real
"assemble_kg_build_calcsize": 205 calls 0.060 user 0.002 sys 0.064 real
"assemble_kg_build_clear": 265 calls 0.001 user 0.000 sys 0.004 real
"assemble_kg_build_prepare": 410 calls 0.027 user 0.000 sys 0.049 real
"assemble_kg_build_threading": 145 calls 0.027 user 0.000 sys 0.042 real
"assemble_kg_op1": 145 calls 0.000 user 0.000 sys 0.010 real
"assemble_kg_op2": 145 calls 0.000 user 0.000 sys 0.003 real
"assemble_kg_op3": 145 calls 0.000 user 0.000 sys 0.003 real
"assemble_sg_clean": 140 calls 0.020 user 0.000 sys 0.012 real
"assemble_sg_create": 140 calls 0.005 user 0.000 sys 0.015 real
"checkGraph": 96 calls 0.000 user 0.000 sys 0.000 real
"findHaplotype": 96 calls 0.070 user 0.013 sys 0.140 real
active: 1044 calls 0.010 user 0.000 sys 0.003 real
advance: 528 calls 1.129 user 0.010 sys 1.424 real
annotate: 105 calls 0.010 user 0.000 sys 0.009 real
assemble_region: 96 calls 0.217 user 0.015 sys 0.367 real
build_variants: 95 calls 0.000 user 0.000 sys 0.000 real
calc: 1044 calls 0.121 user 0.005 sys 0.119 real
calc_region: 95 calls 1.568 user 0.000 sys 1.637 real
call_region: 95 calls 0.032 user 0.000 sys 0.015 real
clip_region: 191 calls 0.000 user 0.000 sys 0.017 real
done: 1 calls 0.000 user 0.000 sys 0.002 real
execute: 1 calls 0.002 user 0.001 sys 0.430 real
fetch: 1044 calls 0.043 user 0.000 sys 0.051 real
fetch_db: 95 calls 0.033 user 0.000 sys 0.029 real
fetch_ref: 1140 calls 0.012 user 0.000 sys 0.005 real
fetch_region: 96 calls 0.004 user 0.000 sys 0.005 real
idle: 52 calls 0.051 user 0.000 sys 12.492 real
init: 1 calls 0.030 user 0.010 sys 0.041 real
pairhmm: 430 calls 2.510 user 0.008 sys 2.689 real
realign: 197 calls 0.097 user 0.000 sys 0.166 real
region: 1044 calls 2.306 user 0.018 sys 2.299 real
tracker: 1044 calls 0.000 user 0.000 sys 0.003 real
trim_region: 96 calls 0.000 user 0.000 sys 0.002 real
overall: 231477248 mem 4.964 user 0.100 sys 1.531 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory