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% @chr2:29531915, elapsed 0.0s, est remaining 0.1s, peak mem 48MB, user 0.0s, sys 0.0s, output queue size 112
progress 10% @chr2:214725647, elapsed 0.0s, est remaining 0.1s, peak mem 48MB, user 0.0s, sys 0.0s, output queue size 122
progress 15% @chr3:142549478, elapsed 0.0s, est remaining 0.1s, peak mem 48MB, user 0.0s, sys 0.0s, output queue size 349
progress 20% @chr5:132558186, elapsed 0.0s, est remaining 0.1s, peak mem 48MB, user 0.0s, sys 0.0s, output queue size 537
progress 25% @chr7:55057435, elapsed 0.0s, est remaining 0.0s, peak mem 48MB, user 0.0s, sys 0.0s, output queue size 672
progress 30% @chr7:55176897, elapsed 0.0s, est remaining 0.0s, peak mem 48MB, user 0.0s, sys 0.0s, output queue size 705
progress 35% @chr9:21994106, elapsed 0.0s, est remaining 0.0s, peak mem 48MB, user 0.0s, sys 0.0s, output queue size 848
progress 40% @chr10:43111197, elapsed 0.0s, est remaining 0.0s, peak mem 48MB, user 0.0s, sys 0.0s, output queue size 989
progress 45% @chr11:64803513, elapsed 0.0s, est remaining 0.0s, peak mem 48MB, user 0.0s, sys 0.0s, output queue size 1104
progress 50% @chr12:11776559, elapsed 0.0s, est remaining 0.0s, peak mem 48MB, user 0.0s, sys 0.0s, output queue size 1285
progress 55% @chr12:11792759, elapsed 0.0s, est remaining 0.0s, peak mem 48MB, user 0.0s, sys 0.0s, output queue size 1295
progress 60% @chr12:11831519, elapsed 0.0s, est remaining 0.0s, peak mem 48MB, user 0.0s, sys 0.0s, output queue size 1314
progress 65% @chr12:132668626, elapsed 0.0s, est remaining 0.0s, peak mem 48MB, user 0.0s, sys 0.0s, output queue size 1386
progress 70% @chr14:65075125, elapsed 0.0s, est remaining 0.0s, peak mem 48MB, user 0.0s, sys 0.0s, output queue size 1557
progress 75% @chr15:89303863, elapsed 0.0s, est remaining 0.0s, peak mem 48MB, user 0.0s, sys 0.0s, output queue size 1707
progress 80% @chr17:7683519, elapsed 0.0s, est remaining 0.0s, peak mem 48MB, user 0.0s, sys 0.1s, output queue size 1944
progress 85% @chr17:39532155, elapsed 0.0s, est remaining 0.0s, peak mem 48MB, user 0.0s, sys 0.1s, output queue size 2123
progress 90% @chr17:61681285, elapsed 0.0s, est remaining 0.0s, peak mem 48MB, user 0.0s, sys 0.1s, output queue size 2225
progress 95% @chr19:52195329, elapsed 0.0s, est remaining 0.0s, peak mem 48MB, user 0.0s, sys 0.1s, output queue size 2413
progress 100% @chr21:34787802, elapsed 0.1s, est remaining 0.0s, peak mem 105MB, user 0.2s, sys 0.2s, output queue size 124
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: 111697681
output file size: 22294
reads: 1322929
contig: 2712 intervals 851273 bases
active: 5761 calls 0.001 user 0.000 sys 0.003 real
advance: 3049 calls 0.098 user 0.096 sys 0.203 real
calc: 5761 calls 0.005 user 0.001 sys 0.031 real
clip_region: 7 calls 0.010 user 0.006 sys 0.003 real
done: 1 calls 0.000 user 0.000 sys 0.002 real
execute: 1 calls 0.003 user 0.002 sys 0.131 real
fetch: 5761 calls 0.010 user 0.004 sys 0.012 real
fetch_ref: 5768 calls 0.004 user 0.004 sys 0.022 real
fetch_region: 7 calls 0.000 user 0.000 sys 0.001 real
idle: 25 calls 0.011 user 0.018 sys 12.798 real
init: 1 calls 0.000 user 0.000 sys 0.002 real
region: 5761 calls 0.010 user 0.006 sys 0.006 real
tracker: 5761 calls 0.000 user 0.000 sys 0.007 real
overall: 110235648 mem 0.287 user 0.369 sys 1.185 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory