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 0
progress 10% @chr2:214801250, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 99
progress 15% @chr3:142542665, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 277
progress 20% @chr5:112827091, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 460
progress 25% @chr7:6002447, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 593
progress 30% @chr7:55176897, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 638
progress 35% @chr9:21970761, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 541
progress 40% @chr10:43111197, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 686
progress 45% @chr11:64807873, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 810
progress 50% @chr12:11773199, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 985
progress 55% @chr12:11809199, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 997
progress 60% @chr12:11860606, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 1014
progress 65% @chr12:132677575, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 1095
progress 70% @chr14:65075125, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 1251
progress 75% @chr15:89311648, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 1411
progress 80% @chr17:7684359, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.1s, sys 0.0s, output queue size 1646
progress 85% @chr17:39532155, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.1s, sys 0.1s, output queue size 1824
progress 90% @chr17:61681285, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.1s, sys 0.1s, output queue size 1926
progress 95% @chr19:52175734, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.1s, sys 0.1s, output queue size 2111
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: 74586805
output file size: 22313
reads: 1001133
contig: 2712 intervals 851273 bases
active: 5761 calls 0.000 user 0.000 sys 0.002 real
advance: 3049 calls 0.068 user 0.006 sys 0.119 real
calc: 5761 calls 0.002 user 0.000 sys 0.019 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 0.001 user 0.000 sys 0.100 real
fetch: 5761 calls 0.009 user 0.013 sys 0.009 real
fetch_ref: 5768 calls 0.001 user 0.000 sys 0.023 real
fetch_region: 7 calls 0.000 user 0.000 sys 0.001 real
idle: 24 calls 0.010 user 0.011 sys 12.444 real
init: 1 calls 0.000 user 0.000 sys 0.002 real
region: 5761 calls 0.000 user 0.001 sys 0.004 real
tracker: 5761 calls 0.001 user 0.001 sys 0.007 real
overall: 91447296 mem 0.260 user 0.300 sys 1.160 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory