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 HCC1395_BL.dv_only_sites.vcf.gz --emit_mode variant HCC1395_BL.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 0
progress 10% @chr2:214794533, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 49
progress 15% @chr3:142496361, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 260
progress 20% @chr5:112828853, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 443
progress 25% @chr7:6000358, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 575
progress 30% @chr7:55176897, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 616
progress 35% @chr9:21974436, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 752
progress 40% @chr10:43111197, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 902
progress 45% @chr11:64804862, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 1016
progress 50% @chr12:11770919, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 1197
progress 55% @chr12:11792759, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 1210
progress 60% @chr12:11855326, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 1226
progress 65% @chr12:132660824, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 1287
progress 70% @chr14:65075125, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 1468
progress 75% @chr15:89303863, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 1617
progress 80% @chr17:7677279, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 1854
progress 85% @chr17:39530604, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 87
progress 90% @chr17:61679140, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 190
progress 95% @chr19:52201094, elapsed 0.1s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 377
progress 100% @chr21:34787802, elapsed 0.1s, est remaining 0.0s, peak mem 114MB, user 0.2s, 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: 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: 163002590
output file size: 22292
reads: 1955548
contig: 2712 intervals 851273 bases
active: 5761 calls 0.000 user 0.000 sys 0.002 real
advance: 3049 calls 0.094 user 0.094 sys 0.236 real
calc: 5761 calls 0.003 user 0.000 sys 0.030 real
clip_region: 8 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 0.150 real
fetch: 5761 calls 0.029 user 0.005 sys 0.015 real
fetch_ref: 5769 calls 0.003 user 0.001 sys 0.024 real
fetch_region: 8 calls 0.000 user 0.000 sys 0.002 real
idle: 24 calls 0.005 user 0.014 sys 12.868 real
init: 1 calls 0.001 user 0.009 sys 0.002 real
region: 5761 calls 0.000 user 0.000 sys 0.007 real
tracker: 5761 calls 0.004 user 0.000 sys 0.007 real
overall: 119803904 mem 0.276 user 0.486 sys 1.203 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory