cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -r Homo_sapiens_assembly38.fasta -t 12 --interval germline_rescue_targets.bed -i HCC1395_BL.recalibrated.bam --algo Haplotyper --given germline_control_1.dv_only_sites.vcf.gz --emit_mode variant germline_control_1.forcecall.unfiltered.vcf.gz
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr2:29531915, elapsed 0.0s, est remaining 0.2s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 0
progress 10% @chr2:214725647, elapsed 0.0s, est remaining 0.1s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 10
progress 15% @chr3:142522728, elapsed 0.0s, est remaining 0.1s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 230
progress 20% @chr5:132556931, elapsed 0.0s, est remaining 0.1s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 417
progress 25% @chr7:55057435, elapsed 0.0s, est remaining 0.1s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 551
progress 30% @chr7:116699072, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 584
progress 35% @chr9:21994822, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 728
progress 40% @chr10:43111197, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 866
progress 45% @chr11:61445932, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 984
progress 50% @chr12:11776559, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 1165
progress 55% @chr12:11792759, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 1176
progress 60% @chr12:11855326, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 1193
progress 65% @chr12:132672595, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 1265
progress 70% @chr14:65075125, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.1s, output queue size 1437
progress 75% @chr15:89303863, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.1s, output queue size 1587
progress 80% @chr17:7682559, elapsed 0.0s, est remaining 0.0s, peak mem 54MB, user 0.0s, sys 0.1s, output queue size 1821
progress 85% @chr17:39530604, elapsed 0.0s, est remaining 0.0s, peak mem 55MB, user 0.0s, sys 0.1s, output queue size 2002
progress 90% @chr17:61679140, elapsed 0.0s, est remaining 0.0s, peak mem 55MB, user 0.0s, sys 0.1s, output queue size 2104
progress 95% @chr19:50417823, elapsed 0.0s, est remaining 0.0s, peak mem 55MB, user 0.0s, sys 0.1s, output queue size 2287
progress 100% @chr21:34787802, elapsed 0.1s, est remaining 0.0s, peak mem 87MB, user 0.1s, sys 0.1s, output queue size 124
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 12 max 192
algo: Haplotyper
license: sentieon:Haplotyper=12
input file size: 71692760
output file size: 22310
reads: 1001089
contig: 2712 intervals 851273 bases
active: 5761 calls 0.000 user 0.002 sys 0.002 real
advance: 3049 calls 0.058 user 0.025 sys 0.104 real
calc: 5761 calls 0.009 user 0.000 sys 0.017 real
clip_region: 7 calls 0.000 user 0.000 sys 0.001 real
done: 1 calls 0.000 user 0.000 sys 0.002 real
execute: 1 calls 0.010 user 0.000 sys 0.090 real
fetch: 5761 calls 0.009 user 0.006 sys 0.008 real
fetch_ref: 5768 calls 0.001 user 0.003 sys 0.022 real
fetch_region: 7 calls 0.000 user 0.000 sys 0.001 real
idle: 24 calls 0.012 user 0.005 sys 12.392 real
init: 1 calls 0.000 user 0.000 sys 0.001 real
region: 5761 calls 0.000 user 0.000 sys 0.004 real
tracker: 5761 calls 0.000 user 0.000 sys 0.006 real
overall: 91504640 mem 0.194 user 0.325 sys 1.141 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory