cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -r Homo_sapiens_assembly38.fasta -t 12 --interval chr8_93795409-93795507.bed.gz -i Sig_18_Blood.recalibrated.bam --algo Haplotyper -d dbsnp_146.hg38.vcf.gz --emit_mode variant germline_control_2.haplotyper.chr8_93795409-93795507.bed.unfiltered.vcf.gz
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr8:144244222, elapsed 0.1s, est remaining 1.0s, peak mem 75MB, user 0.0s, sys 0.1s, output queue size 1692
progress 10% @chr9:36833270, elapsed 0.1s, est remaining 0.9s, peak mem 78MB, user 0.1s, sys 0.3s, output queue size 3909
progress 15% @chr9:96758778, elapsed 0.1s, est remaining 0.8s, peak mem 90MB, user 0.1s, sys 0.4s, output queue size 5695
progress 20% @chr9:128945687, elapsed 0.2s, est remaining 1.0s, peak mem 108MB, user 0.1s, sys 0.6s, output queue size 8310
progress 25% @chr10:14932854, elapsed 0.3s, est remaining 0.9s, peak mem 108MB, user 0.2s, sys 0.7s, output queue size 11066
progress 30% @chr10:69200280, elapsed 0.4s, est remaining 0.8s, peak mem 114MB, user 0.2s, sys 0.9s, output queue size 13448
progress 35% @chr10:100505361, elapsed 0.4s, est remaining 0.8s, peak mem 123MB, user 0.2s, sys 1.1s, output queue size 16103
progress 40% @chr11:314922, elapsed 0.5s, est remaining 0.7s, peak mem 138MB, user 0.2s, sys 1.3s, output queue size 18686
progress 45% @chr11:17988597, elapsed 0.5s, est remaining 0.6s, peak mem 138MB, user 0.3s, sys 1.5s, output queue size 3008
progress 50% @chr11:61445932, elapsed 0.6s, est remaining 0.6s, peak mem 150MB, user 0.3s, sys 1.7s, output queue size 5391
progress 55% @chr11:73234160, elapsed 0.6s, est remaining 0.5s, peak mem 165MB, user 0.3s, sys 1.8s, output queue size 8047
progress 60% @chr11:114449846, elapsed 0.7s, est remaining 0.4s, peak mem 168MB, user 0.4s, sys 2.0s, output queue size 10337
progress 65% @chr12:6462034, elapsed 0.7s, est remaining 0.4s, peak mem 183MB, user 0.4s, sys 2.1s, output queue size 12695
progress 70% @chr12:31667647, elapsed 0.8s, est remaining 0.3s, peak mem 189MB, user 0.4s, sys 2.2s, output queue size 14785
progress 75% @chr12:55971521, elapsed 0.8s, est remaining 0.3s, peak mem 195MB, user 0.4s, sys 2.3s, output queue size 17265
progress 80% @chr12:100050168, elapsed 0.8s, est remaining 0.2s, peak mem 204MB, user 0.5s, sys 2.5s, output queue size 19991
progress 85% @chr12:123783947, elapsed 0.9s, est remaining 0.2s, peak mem 210MB, user 0.6s, sys 2.7s, output queue size 22848
progress 90% @chr13:48456200, elapsed 1.0s, est remaining 0.1s, peak mem 228MB, user 0.6s, sys 2.8s, output queue size 25215
progress 95% @chr14:22766522, elapsed 1.0s, est remaining 0.1s, peak mem 234MB, user 0.6s, sys 3.0s, output queue size 27470
progress 100% @chr14:64024912, elapsed 1.1s, est remaining 0.0s, peak mem 237MB, user 0.7s, sys 3.1s, output queue size 30024
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: 74586809
output file size: 22310
reads: 1001133
contig: 48642 intervals 9000010 bases
"assemble": 1 calls 0.000 user 0.000 sys 0.000 real
"assemble_addRead": 1 calls 0.000 user 0.000 sys 0.000 real
"assemble_buildGraph": 2 calls 0.000 user 0.000 sys 0.000 real
"assemble_computecigar": 1 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_build_calcsize": 2 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_build_clear": 3 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_build_prepare": 4 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_build_threading": 1 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_op1": 1 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_op2": 1 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_op3": 1 calls 0.000 user 0.000 sys 0.000 real
"assemble_sg_clean": 1 calls 0.000 user 0.000 sys 0.000 real
"assemble_sg_create": 1 calls 0.000 user 0.000 sys 0.000 real
"checkGraph": 1 calls 0.000 user 0.000 sys 0.000 real
"findHaplotype": 1 calls 0.000 user 0.000 sys 0.000 real
active: 98785 calls 0.000 user 0.005 sys 0.018 real
advance: 50143 calls 0.003 user 0.010 sys 0.022 real
assemble_region: 1 calls 0.000 user 0.000 sys 0.000 real
calc: 98785 calls 0.006 user 0.001 sys 0.018 real
clip_region: 1 calls 0.000 user 0.000 sys 0.000 real
done: 1 calls 0.000 user 0.000 sys 0.002 real
execute: 1 calls 0.003 user 0.001 sys 2.550 real
fetch: 98785 calls 0.010 user 0.000 sys 0.019 real
fetch_ref: 98786 calls 0.103 user 0.050 sys 0.355 real
fetch_region: 1 calls 0.000 user 0.000 sys 0.000 real
idle: 51 calls 0.003 user 0.005 sys 30.412 real
init: 1 calls 0.020 user 0.020 sys 0.043 real
region: 98785 calls 0.005 user 0.005 sys 0.022 real
tracker: 98785 calls 0.055 user 0.005 sys 0.090 real
trim_region: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 248664064 mem 1.161 user 5.210 sys 3.668 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory