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 0.5s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 19
progress 10% @chr2:214730408, elapsed 0.0s, est remaining 0.2s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 143
progress 15% @chr3:169764064, elapsed 0.0s, est remaining 0.2s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 389
progress 20% @chr5:112827910, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 233
progress 25% @chr7:6003675, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 366
progress 30% @chr7:55204953, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 405
progress 35% @chr9:21974436, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.1s, sys 0.0s, output queue size 542
progress 40% @chr10:43111197, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.1s, sys 0.0s, output queue size 690
progress 45% @chr11:94415571, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.1s, sys 0.0s, output queue size 820
progress 50% @chr12:11770919, elapsed 0.1s, est remaining 0.1s, peak mem 49MB, user 0.1s, sys 0.0s, output queue size 985
progress 55% @chr12:11792759, elapsed 0.1s, est remaining 0.0s, peak mem 49MB, user 0.1s, sys 0.0s, output queue size 1000
progress 60% @chr12:11855326, elapsed 0.1s, est remaining 0.0s, peak mem 49MB, user 0.1s, sys 0.0s, output queue size 1016
progress 65% @chr12:132663994, elapsed 0.1s, est remaining 0.0s, peak mem 49MB, user 0.1s, sys 0.0s, output queue size 1077
progress 70% @chr14:65075125, elapsed 0.1s, est remaining 0.0s, peak mem 49MB, user 0.1s, sys 0.0s, output queue size 1253
progress 75% @chr15:89314597, elapsed 0.1s, est remaining 0.0s, peak mem 49MB, user 0.1s, sys 0.0s, output queue size 1413
progress 80% @chr17:7682079, elapsed 0.1s, est remaining 0.0s, peak mem 49MB, user 0.1s, sys 0.0s, output queue size 1646
progress 85% @chr17:43044296, elapsed 0.1s, est remaining 0.0s, peak mem 49MB, user 0.1s, sys 0.0s, output queue size 1832
progress 90% @chr17:61784259, elapsed 0.1s, est remaining 0.0s, peak mem 49MB, user 0.1s, sys 0.0s, output queue size 1942
progress 95% @chr19:52190038, elapsed 0.1s, est remaining 0.0s, peak mem 51MB, user 0.1s, sys 0.0s, output queue size 2114
progress 100% @chr21:34787802, elapsed 0.1s, est remaining 0.0s, peak mem 84MB, user 0.2s, sys 0.1s, output queue size 124
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
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: 71692776
output file size: 22311
reads: 1001089
contig: 2712 intervals 851273 bases
active: 5761 calls 0.000 user 0.000 sys 0.002 real
advance: 3049 calls 0.060 user 0.024 sys 0.110 real
calc: 5761 calls 0.001 user 0.000 sys 0.018 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 0.005 user 0.003 sys 0.145 real
fetch: 5761 calls 0.012 user 0.001 sys 0.008 real
fetch_ref: 5768 calls 0.001 user 0.000 sys 0.022 real
fetch_region: 7 calls 0.000 user 0.000 sys 0.001 real
idle: 25 calls 0.012 user 0.006 sys 12.661 real
init: 1 calls 0.000 user 0.000 sys 0.002 real
region: 5761 calls 0.004 user 0.001 sys 0.004 real
tracker: 5761 calls 0.002 user 0.000 sys 0.007 real
overall: 88346624 mem 0.251 user 0.251 sys 1.196 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory