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 0.2s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 54
progress 10% @chr2:214725647, elapsed 0.0s, est remaining 0.1s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 114
progress 15% @chr3:142549478, elapsed 0.0s, est remaining 0.1s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 340
progress 20% @chr5:132556931, elapsed 0.0s, est remaining 0.1s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 520
progress 25% @chr7:55166217, elapsed 0.0s, est remaining 0.1s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 679
progress 30% @chr7:116775713, elapsed 0.0s, est remaining 0.1s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 708
progress 35% @chr9:95107064, elapsed 0.0s, est remaining 0.1s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 855
progress 40% @chr10:86917119, elapsed 0.0s, est remaining 0.1s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 1001
progress 45% @chr11:61437623, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 1091
progress 50% @chr12:11776559, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 87
progress 55% @chr12:11760959, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 101
progress 60% @chr12:11869246, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.0s, output queue size 117
progress 65% @chr12:11790959, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.1s, output queue size 216
progress 70% @chr14:65075125, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.1s, sys 0.1s, output queue size 356
progress 75% @chr15:89312894, elapsed 0.1s, est remaining 0.0s, peak mem 51MB, user 0.1s, sys 0.1s, output queue size 515
progress 80% @chr17:7679679, elapsed 0.1s, est remaining 0.0s, peak mem 51MB, user 0.1s, sys 0.1s, output queue size 749
progress 85% @chr17:39530604, elapsed 0.1s, est remaining 0.0s, peak mem 51MB, user 0.1s, sys 0.1s, output queue size 925
progress 90% @chr17:61683205, elapsed 0.1s, est remaining 0.0s, peak mem 51MB, user 0.1s, sys 0.2s, output queue size 1029
progress 95% @chr19:50416391, elapsed 0.1s, est remaining 0.0s, peak mem 51MB, user 0.1s, sys 0.2s, output queue size 1212
progress 100% @chr21:34787802, elapsed 0.1s, est remaining 0.0s, peak mem 75MB, user 0.1s, sys 0.3s, 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: 74586799
output file size: 22313
reads: 1001133
contig: 2712 intervals 851273 bases
active: 5761 calls 0.000 user 0.000 sys 0.003 real
advance: 3049 calls 0.050 user 0.055 sys 0.137 real
calc: 5761 calls 0.005 user 0.000 sys 0.022 real
clip_region: 7 calls 0.000 user 0.001 sys 0.002 real
done: 1 calls 0.000 user 0.000 sys 0.002 real
execute: 1 calls 0.002 user 0.004 sys 0.135 real
fetch: 5761 calls 0.008 user 0.001 sys 0.011 real
fetch_ref: 5768 calls 0.003 user 0.001 sys 0.027 real
fetch_region: 7 calls 0.000 user 0.000 sys 0.001 real
idle: 25 calls 0.012 user 0.009 sys 12.498 real
init: 1 calls 0.000 user 0.000 sys 0.002 real
region: 5761 calls 0.000 user 0.002 sys 0.005 real
tracker: 5761 calls 0.001 user 0.000 sys 0.008 real
overall: 78761984 mem 0.294 user 0.577 sys 1.194 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory