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 82MB, user 0.0s, sys 0.0s, output queue size 1
progress 10% @chr21:44289657, elapsed 0.0s, est remaining 0.3s, peak mem 105MB, user 0.2s, sys 0.0s, output queue size 39
progress 15% @chr21:44382718, elapsed 0.0s, est remaining 0.3s, peak mem 123MB, 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 98
progress 26% @chr21:44591387, elapsed 0.1s, est remaining 0.2s, peak mem 160MB, user 0.5s, sys 0.0s, output queue size 108
progress 30% @chr21:44697202, elapsed 0.2s, est remaining 0.4s, peak mem 219MB, user 0.8s, sys 0.0s, output queue size 115
progress 36% @chr21:44224713, elapsed 0.2s, est remaining 0.3s, peak mem 219MB, user 0.9s, sys 0.1s, output queue size 118
progress 40% @chr21:44889978, elapsed 0.2s, est remaining 0.3s, peak mem 220MB, user 1.2s, sys 0.1s, output queue size 32
progress 45% @chr21:45184923, elapsed 0.2s, est remaining 0.3s, peak mem 220MB, user 1.5s, sys 0.1s, output queue size 54
progress 50% @chr21:45405379, elapsed 0.2s, est remaining 0.2s, peak mem 220MB, user 2.0s, sys 0.1s, output queue size 68
progress 55% @chr21:45267451, elapsed 0.2s, est remaining 0.2s, peak mem 220MB, user 2.3s, sys 0.1s, output queue size 25
progress 60% @chr21:45986526, elapsed 0.3s, est remaining 0.2s, peak mem 220MB, user 2.4s, sys 0.1s, output queue size 29
progress 65% @chr21:46116377, elapsed 0.3s, est remaining 0.2s, peak mem 220MB, user 2.6s, sys 0.1s, output queue size 11
progress 70% @chr21:46131954, elapsed 0.3s, est remaining 0.1s, peak mem 223MB, user 2.8s, sys 0.1s, output queue size 48
progress 75% @chr21:46254776, elapsed 0.4s, est remaining 0.1s, peak mem 223MB, user 2.9s, sys 0.1s, output queue size 53
progress 80% @chr21:46326377, elapsed 0.4s, est remaining 0.1s, peak mem 223MB, user 3.2s, sys 0.1s, output queue size 82
progress 85% @chr21:46389199, elapsed 0.4s, est remaining 0.1s, peak mem 223MB, user 3.3s, sys 0.1s, output queue size 4
progress 90% @chr21:46484757, elapsed 0.4s, est remaining 0.0s, peak mem 223MB, user 3.4s, sys 0.1s, output queue size 26
progress 95% @chr21:46554169, elapsed 0.4s, est remaining 0.0s, peak mem 223MB, user 3.5s, sys 0.1s, output queue size 57
progress 100% @chr21:46602278, elapsed 0.4s, est remaining 0.0s, peak mem 223MB, user 3.6s, sys 0.1s, output queue size 11
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
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: 38711
reads: 1955548
contig: 516 intervals 92221 bases
"assemble": 96 calls 0.135 user 0.000 sys 0.215 real
"assemble_addRead": 96 calls 0.000 user 0.000 sys 0.010 real
"assemble_buildGraph": 205 calls 0.093 user 0.000 sys 0.108 real
"assemble_computecigar": 140 calls 0.070 user 0.005 sys 0.134 real
"assemble_kg_build_calcsize": 205 calls 0.035 user 0.000 sys 0.064 real
"assemble_kg_build_clear": 265 calls 0.000 user 0.000 sys 0.005 real
"assemble_kg_build_prepare": 410 calls 0.019 user 0.000 sys 0.050 real
"assemble_kg_build_threading": 145 calls 0.058 user 0.000 sys 0.042 real
"assemble_kg_op1": 145 calls 0.005 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 0.000 user 0.000 sys 0.011 real
"assemble_sg_create": 140 calls 0.016 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 0.005 sys 0.138 real
active: 1044 calls 0.000 user 0.000 sys 0.003 real
advance: 528 calls 1.052 user 0.047 sys 1.385 real
annotate: 105 calls 0.002 user 0.000 sys 0.008 real
assemble_region: 96 calls 0.205 user 0.005 sys 0.364 real
build_variants: 95 calls 0.000 user 0.000 sys 0.000 real
calc: 1044 calls 0.079 user 0.000 sys 0.118 real
calc_region: 95 calls 1.532 user 0.014 sys 1.629 real
call_region: 95 calls 0.002 user 0.000 sys 0.014 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 0.003 user 0.002 sys 0.430 real
fetch: 1044 calls 0.031 user 0.000 sys 0.050 real
fetch_db: 95 calls 0.004 user 0.000 sys 0.028 real
fetch_ref: 1140 calls 0.017 user 0.000 sys 0.005 real
fetch_region: 96 calls 0.000 user 0.000 sys 0.004 real
idle: 48 calls 0.060 user 0.000 sys 12.500 real
init: 1 calls 0.029 user 0.011 sys 0.040 real
pairhmm: 430 calls 2.611 user 0.010 sys 2.685 real
realign: 197 calls 0.148 user 0.004 sys 0.166 real
region: 1044 calls 2.369 user 0.025 sys 2.425 real
tracker: 1044 calls 0.000 user 0.000 sys 0.003 real
trim_region: 96 calls 0.000 user 0.000 sys 0.001 real
overall: 234369024 mem 4.914 user 0.099 sys 1.530 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory