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 0.2s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 63
progress 10% @chr2:214725647, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 193
progress 15% @chr3:142523851, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 416
progress 20% @chr5:112837544, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 605
progress 25% @chr7:55086379, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 742
progress 30% @chr7:55176897, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 774
progress 35% @chr9:35073840, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 471
progress 40% @chr10:43111197, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 597
progress 45% @chr11:64807009, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 724
progress 50% @chr12:11773199, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 903
progress 55% @chr12:11792759, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 915
progress 60% @chr12:11859406, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 931
progress 65% @chr12:132659281, elapsed 0.1s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 994
progress 70% @chr14:65075125, elapsed 0.1s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.2s, output queue size 1176
progress 75% @chr15:89307474, elapsed 0.1s, est remaining 0.0s, peak mem 52MB, user 0.0s, sys 0.2s, output queue size 1329
progress 80% @chr17:7679679, elapsed 0.1s, est remaining 0.0s, peak mem 52MB, user 0.0s, sys 0.2s, output queue size 1560
progress 85% @chr17:39532155, elapsed 0.1s, est remaining 0.0s, peak mem 54MB, user 0.0s, sys 0.3s, output queue size 1738
progress 90% @chr17:61679140, elapsed 0.1s, est remaining 0.0s, peak mem 54MB, user 0.0s, sys 0.3s, output queue size 1840
progress 95% @chr19:50417823, elapsed 0.1s, est remaining 0.0s, peak mem 55MB, user 0.0s, sys 0.3s, output queue size 2027
progress 100% @chr21:34787802, elapsed 0.1s, est remaining 0.0s, peak mem 87MB, user 0.2s, 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 192
algo: Haplotyper
license: sentieon:Haplotyper=12
input file size: 71692769
output file size: 22310
reads: 1001089
contig: 2712 intervals 851273 bases
active: 5761 calls 0.006 user 0.010 sys 0.003 real
advance: 3049 calls 0.082 user 0.061 sys 0.150 real
calc: 5761 calls 0.009 user 0.000 sys 0.025 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 0.000 user 0.003 sys 0.152 real
fetch: 5761 calls 0.002 user 0.001 sys 0.013 real
fetch_ref: 5768 calls 0.003 user 0.003 sys 0.030 real
fetch_region: 7 calls 0.010 user 0.000 sys 0.002 real
idle: 25 calls 0.007 user 0.010 sys 12.516 real
init: 1 calls 0.000 user 0.002 sys 0.002 real
region: 5761 calls 0.010 user 0.000 sys 0.006 real
tracker: 5761 calls 0.001 user 0.002 sys 0.010 real
overall: 91504640 mem 0.296 user 0.756 sys 1.213 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory