cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -r Homo_sapiens_assembly38.fasta -t 12 --interval germline_rescue_targets.bed -i Sig_18_Blood.recalibrated.bam --algo Haplotyper --given germline_control_2.dv_only_sites.vcf.gz --emit_mode variant germline_control_2.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 49MB, user 0.0s, sys 0.0s, output queue size 51
progress 10% @chr2:214780548, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 184
progress 15% @chr3:142549478, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 220
progress 20% @chr5:112823307, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 400
progress 25% @chr7:55166217, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 563
progress 30% @chr5:112837544, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 575
progress 35% @chr9:21970761, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 711
progress 40% @chr10:43111197, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 859
progress 45% @chr11:61437623, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 974
progress 50% @chr12:11770919, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 1157
progress 55% @chr12:11792759, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 1169
progress 60% @chr12:11860606, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 1188
progress 65% @chr12:132657130, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 1246
progress 70% @chr14:65092479, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 1428
progress 75% @chr15:89261583, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.1s, output queue size 1579
progress 80% @chr17:7677279, elapsed 0.0s, est remaining 0.0s, peak mem 52MB, user 0.0s, sys 0.1s, output queue size 120
progress 85% @chr17:39530604, elapsed 0.0s, est remaining 0.0s, peak mem 52MB, user 0.1s, sys 0.1s, output queue size 297
progress 90% @chr17:61681285, elapsed 0.0s, est remaining 0.0s, peak mem 52MB, user 0.1s, sys 0.1s, output queue size 404
progress 95% @chr19:50416610, elapsed 0.1s, est remaining 0.0s, peak mem 52MB, user 0.1s, sys 0.1s, output queue size 585
progress 100% @chr21:34787802, elapsed 0.1s, est remaining 0.0s, peak mem 84MB, user 0.1s, 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 192
algo: Haplotyper
license: sentieon:Haplotyper=12
input file size: 74586807
output file size: 22311
reads: 1001133
contig: 2712 intervals 851273 bases
active: 5761 calls 0.000 user 0.000 sys 0.002 real
advance: 3049 calls 0.058 user 0.035 sys 0.107 real
calc: 5761 calls 0.011 user 0.000 sys 0.020 real
clip_region: 7 calls 0.000 user 0.000 sys 0.002 real
done: 1 calls 0.000 user 0.000 sys 0.002 real
execute: 1 calls 0.001 user 0.001 sys 0.105 real
fetch: 5761 calls 0.004 user 0.001 sys 0.010 real
fetch_ref: 5768 calls 0.001 user 0.000 sys 0.026 real
fetch_region: 7 calls 0.000 user 0.000 sys 0.001 real
idle: 26 calls 0.007 user 0.005 sys 12.498 real
init: 1 calls 0.000 user 0.010 sys 0.002 real
region: 5761 calls 0.000 user 0.000 sys 0.004 real
tracker: 5761 calls 0.000 user 0.002 sys 0.007 real
overall: 88346624 mem 0.252 user 0.402 sys 1.169 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory