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.recal.bam --algo Haplotyper --given HCC1395_BL.dv_only_sites.vcf.gz --emit_mode variant HCC1395_BL.forcecall.unfiltered.vcf.gz
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr2:29694850, elapsed 0.0s, est remaining 0.1s, peak mem 50MB, user 0.0s, sys 0.0s, output queue size 74
progress 10% @chr2:58163432, elapsed 0.0s, est remaining 0.1s, peak mem 50MB, user 0.0s, sys 0.0s, output queue size 197
progress 15% @chr3:142540904, elapsed 0.0s, est remaining 0.1s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 426
progress 20% @chr5:112827910, elapsed 0.0s, est remaining 0.1s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 608
progress 25% @chr6:113953277, elapsed 0.0s, est remaining 0.1s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 28
progress 30% @chr7:55204953, elapsed 0.0s, est remaining 0.0s, peak mem 52MB, user 0.0s, sys 0.0s, output queue size 70
progress 35% @chr9:21970761, elapsed 0.0s, est remaining 0.0s, peak mem 52MB, user 0.0s, sys 0.0s, output queue size 206
progress 40% @chr10:43111197, elapsed 0.0s, est remaining 0.0s, peak mem 54MB, user 0.0s, sys 0.0s, output queue size 346
progress 45% @chr11:61445932, elapsed 0.0s, est remaining 0.0s, peak mem 55MB, user 0.0s, sys 0.1s, output queue size 465
progress 50% @chr12:11770919, elapsed 0.0s, est remaining 0.0s, peak mem 55MB, user 0.0s, sys 0.1s, output queue size 646
progress 55% @chr12:11796959, elapsed 0.0s, est remaining 0.0s, peak mem 55MB, user 0.0s, sys 0.1s, output queue size 658
progress 60% @chr12:11860606, elapsed 0.0s, est remaining 0.0s, peak mem 55MB, user 0.0s, sys 0.1s, output queue size 676
progress 65% @chr12:132663994, elapsed 0.0s, est remaining 0.0s, peak mem 55MB, user 0.0s, sys 0.1s, output queue size 739
progress 70% @chr14:65084870, elapsed 0.0s, est remaining 0.0s, peak mem 56MB, user 0.0s, sys 0.1s, output queue size 921
progress 75% @chr15:89303863, elapsed 0.0s, est remaining 0.0s, peak mem 57MB, user 0.0s, sys 0.1s, output queue size 1070
progress 80% @chr17:7677279, elapsed 0.1s, est remaining 0.0s, peak mem 58MB, user 0.1s, sys 0.2s, output queue size 1306
progress 85% @chr17:39532155, elapsed 0.1s, est remaining 0.0s, peak mem 58MB, user 0.1s, sys 0.2s, output queue size 1484
progress 90% @chr17:61681285, elapsed 0.1s, est remaining 0.0s, peak mem 58MB, user 0.1s, sys 0.2s, output queue size 1587
progress 95% @chr19:52190411, elapsed 0.1s, est remaining 0.0s, peak mem 59MB, user 0.1s, sys 0.2s, output queue size 1774
progress 100% @chr21:34787802, elapsed 0.2s, est remaining 0.0s, peak mem 115MB, user 0.2s, sys 0.3s, output queue size 124
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000606a6
  features: 1f8bfbff fffa320b
  extended: f1bf07ab 00407f5a
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) Platinum 8375C CPU @ 2.90GHz
threads: 12 max 128
algo: Haplotyper
license: sentieon:Haplotyper=12
input file size: 111697681
output file size: 22294
reads: 1322929
contig: 2712 intervals 851273 bases
active: 5761 calls 0.010 user 0.000 sys 0.003 real
advance: 3049 calls 0.117 user 0.092 sys 0.247 real
calc: 5761 calls 0.021 user 0.000 sys 0.041 real
clip_region: 7 calls 0.000 user 0.000 sys 0.003 real
done: 1 calls 0.001 user 0.000 sys 0.002 real
execute: 1 calls 0.001 user 0.001 sys 0.168 real
fetch: 5761 calls 0.012 user 0.001 sys 0.014 real
fetch_ref: 5768 calls 0.012 user 0.002 sys 0.026 real
fetch_region: 7 calls 0.000 user 0.000 sys 0.002 real
idle: 25 calls 0.017 user 0.014 sys 12.941 real
init: 1 calls 0.001 user 0.009 sys 0.002 real
region: 5761 calls 0.000 user 0.000 sys 0.007 real
tracker: 5761 calls 0.000 user 0.000 sys 0.008 real
overall: 121430016 mem 0.356 user 0.560 sys 1.235 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory