cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -r Homo_sapiens_assembly38.fasta -t 12 --interval chr4_30730753-30730788.bed.gz -i Sig_18_Blood.recalibrated.bam --algo Haplotyper -d dbsnp_146.hg38.vcf.gz --emit_mode variant germline_control_2.haplotyper.chr4_30730753-30730788.bed.unfiltered.vcf.gz
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr4:86782201, elapsed 0.0s, est remaining 0.9s, peak mem 84MB, user 0.0s, sys 0.2s, output queue size 1281
progress 10% @chr4:152328169, elapsed 0.1s, est remaining 0.8s, peak mem 94MB, user 0.0s, sys 0.3s, output queue size 3679
progress 15% @chr5:36608424, elapsed 0.1s, est remaining 0.8s, peak mem 105MB, user 0.1s, sys 0.5s, output queue size 6186
progress 20% @chr5:91072447, elapsed 0.2s, est remaining 0.7s, peak mem 112MB, user 0.1s, sys 0.7s, output queue size 8731
progress 25% @chr5:141192553, elapsed 0.2s, est remaining 0.7s, peak mem 126MB, user 0.1s, sys 0.9s, output queue size 11138
progress 30% @chr5:177293824, elapsed 0.3s, est remaining 0.6s, peak mem 133MB, user 0.2s, sys 1.1s, output queue size 13252
progress 35% @chr6:30948547, elapsed 0.3s, est remaining 0.5s, peak mem 142MB, user 0.2s, sys 1.3s, output queue size 15441
progress 40% @chr6:43625363, elapsed 0.3s, est remaining 0.5s, peak mem 154MB, user 0.2s, sys 1.5s, output queue size 17987
progress 45% @chr6:106544788, elapsed 0.4s, est remaining 0.5s, peak mem 163MB, user 0.3s, sys 1.7s, output queue size 20458
progress 50% @chr6:149378018, elapsed 0.4s, est remaining 0.4s, peak mem 174MB, user 0.3s, sys 1.8s, output queue size 22550
progress 55% @chr7:13911239, elapsed 0.5s, est remaining 0.4s, peak mem 186MB, user 0.4s, sys 1.9s, output queue size 24808
progress 60% @chr7:64077276, elapsed 0.5s, est remaining 0.3s, peak mem 190MB, user 0.4s, sys 2.1s, output queue size 26883
progress 65% @chr7:100990631, elapsed 0.5s, est remaining 0.3s, peak mem 204MB, user 0.5s, sys 2.3s, output queue size 29404
progress 70% @chr7:139398599, elapsed 0.6s, est remaining 0.3s, peak mem 214MB, user 0.5s, sys 2.5s, output queue size 380
progress 75% @chr8:13099347, elapsed 0.6s, est remaining 0.2s, peak mem 220MB, user 0.5s, sys 2.6s, output queue size 2438
progress 80% @chr8:38819522, elapsed 0.7s, est remaining 0.2s, peak mem 235MB, user 0.5s, sys 2.7s, output queue size 4063
progress 85% @chrX:15508354, elapsed 0.7s, est remaining 0.1s, peak mem 243MB, user 0.6s, sys 2.9s, output queue size 6568
progress 90% @chrX:54960824, elapsed 0.7s, est remaining 0.1s, peak mem 249MB, user 0.6s, sys 3.0s, output queue size 8930
progress 95% @chrX:111722793, elapsed 0.8s, est remaining 0.0s, peak mem 261MB, user 0.6s, sys 3.2s, output queue size 10870
progress 100% @chrX:153909070, elapsed 0.8s, est remaining 0.0s, peak mem 265MB, user 0.7s, sys 3.4s, output queue size 13085
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: 74732894
output file size: 22311
reads: 1001133
contig: 45710 intervals 9000068 bases
"assemble": 1 calls 0.000 user 0.000 sys 0.001 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": 2 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": 2 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": 2 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_op1": 2 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_op2": 2 calls 0.000 user 0.000 sys 0.000 real
"assemble_kg_op3": 2 calls 0.000 user 0.000 sys 0.000 real
"assemble_sg_clean": 2 calls 0.000 user 0.000 sys 0.000 real
"assemble_sg_create": 2 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: 93348 calls 0.000 user 0.000 sys 0.017 real
advance: 47638 calls 0.005 user 0.005 sys 0.024 real
assemble_region: 1 calls 0.000 user 0.000 sys 0.001 real
calc: 93348 calls 0.000 user 0.001 sys 0.017 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 0.007 user 0.000 sys 1.500 real
fetch: 93348 calls 0.000 user 0.004 sys 0.017 real
fetch_ref: 93349 calls 0.154 user 0.072 sys 0.370 real
fetch_region: 1 calls 0.000 user 0.000 sys 0.000 real
idle: 39 calls 0.006 user 0.009 sys 20.683 real
init: 1 calls 0.050 user 0.000 sys 0.043 real
region: 93348 calls 0.000 user 0.005 sys 0.021 real
tracker: 93348 calls 0.008 user 0.003 sys 0.083 real
trim_region: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 278663168 mem 1.134 user 4.898 sys 2.618 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory