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.recalibrated.bam --algo Haplotyper --given germline_control_1.dv_only_sites.vcf.gz --emit_mode variant germline_control_1.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 45MB, user 0.0s, sys 0.0s, output queue size 19
progress 10% @chr2:214725647, elapsed 0.0s, est remaining 0.1s, peak mem 45MB, user 0.0s, sys 0.0s, output queue size 145
progress 15% @chr3:142536108, elapsed 0.0s, est remaining 0.1s, peak mem 45MB, user 0.0s, sys 0.0s, output queue size 370
progress 20% @chr5:112823307, elapsed 0.0s, est remaining 0.1s, peak mem 45MB, user 0.0s, sys 0.0s, output queue size 552
progress 25% @chr7:5999106, elapsed 0.0s, est remaining 0.1s, peak mem 45MB, user 0.0s, sys 0.0s, output queue size 686
progress 30% @chr7:55176897, elapsed 0.0s, est remaining 0.0s, peak mem 45MB, user 0.0s, sys 0.0s, output queue size 733
progress 35% @chr9:21969676, elapsed 0.0s, est remaining 0.0s, peak mem 45MB, user 0.0s, sys 0.0s, output queue size 863
progress 40% @chr10:43111197, elapsed 0.0s, est remaining 0.0s, peak mem 45MB, user 0.0s, sys 0.0s, output queue size 1009
progress 45% @chr11:61445932, elapsed 0.0s, est remaining 0.0s, peak mem 45MB, user 0.0s, sys 0.0s, output queue size 77
progress 50% @chr12:11752419, elapsed 0.0s, est remaining 0.0s, peak mem 45MB, user 0.0s, sys 0.0s, output queue size 257
progress 55% @chr12:11810159, elapsed 0.0s, est remaining 0.0s, peak mem 45MB, user 0.0s, sys 0.0s, output queue size 269
progress 60% @chr12:11799959, elapsed 0.0s, est remaining 0.0s, peak mem 45MB, user 0.0s, sys 0.0s, output queue size 291
progress 65% @chr12:132657341, elapsed 0.0s, est remaining 0.0s, peak mem 45MB, user 0.0s, sys 0.1s, output queue size 350
progress 70% @chr14:65075125, elapsed 0.0s, est remaining 0.0s, peak mem 45MB, user 0.0s, sys 0.1s, output queue size 530
progress 75% @chr15:89305104, elapsed 0.0s, est remaining 0.0s, peak mem 45MB, user 0.0s, sys 0.1s, output queue size 681
progress 80% @chr17:7679679, elapsed 0.0s, est remaining 0.0s, peak mem 45MB, user 0.0s, sys 0.1s, output queue size 917
progress 85% @chr17:39547687, elapsed 0.0s, est remaining 0.0s, peak mem 45MB, user 0.0s, sys 0.1s, output queue size 1097
progress 90% @chr17:61683205, elapsed 0.1s, est remaining 0.0s, peak mem 45MB, user 0.0s, sys 0.1s, output queue size 1196
progress 95% @chr19:50416610, elapsed 0.1s, est remaining 0.0s, peak mem 45MB, user 0.0s, sys 0.1s, output queue size 1383
progress 100% @chr21:34787802, elapsed 0.1s, est remaining 0.0s, peak mem 69MB, 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 384
algo: Haplotyper
license: sentieon:Haplotyper=12
input file size: 71692764
output file size: 22310
reads: 1001089
contig: 2712 intervals 851273 bases
active: 5761 calls 0.000 user 0.000 sys 0.002 real
advance: 3049 calls 0.072 user 0.031 sys 0.100 real
calc: 5761 calls 0.001 user 0.000 sys 0.018 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 0.003 user 0.001 sys 0.102 real
fetch: 5761 calls 0.012 user 0.005 sys 0.009 real
fetch_ref: 5768 calls 0.003 user 0.001 sys 0.025 real
fetch_region: 7 calls 0.000 user 0.000 sys 0.001 real
idle: 25 calls 0.013 user 0.007 sys 12.445 real
init: 1 calls 0.000 user 0.000 sys 0.002 real
region: 5761 calls 0.002 user 0.000 sys 0.004 real
tracker: 5761 calls 0.000 user 0.001 sys 0.007 real
overall: 72527872 mem 0.267 user 0.368 sys 1.158 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory