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 18
progress 10% @chr2:214725647, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 112
progress 15% @chr3:142549478, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 336
progress 20% @chr5:112828853, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 518
progress 25% @chr7:6003969, elapsed 0.0s, est remaining 0.1s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 650
progress 30% @chr7:55176897, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 690
progress 35% @chr9:21978845, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 826
progress 40% @chr10:43111197, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 974
progress 45% @chr11:61445932, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.0s, output queue size 1088
progress 50% @chr12:11770919, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 972
progress 55% @chr12:11760959, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 986
progress 60% @chr12:11855326, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 1003
progress 65% @chr12:132657862, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 1062
progress 70% @chr14:65084870, elapsed 0.0s, est remaining 0.0s, peak mem 49MB, user 0.0s, sys 0.1s, output queue size 1244
progress 75% @chr15:89311648, elapsed 0.0s, est remaining 0.0s, peak mem 51MB, user 0.0s, sys 0.1s, output queue size 1394
progress 80% @chr17:7679679, elapsed 0.0s, est remaining 0.0s, peak mem 52MB, user 0.0s, sys 0.1s, output queue size 1627
progress 85% @chr17:39525864, elapsed 0.0s, est remaining 0.0s, peak mem 52MB, user 0.0s, sys 0.1s, output queue size 1807
progress 90% @chr17:61679140, elapsed 0.0s, est remaining 0.0s, peak mem 54MB, user 0.0s, sys 0.1s, output queue size 1911
progress 95% @chr19:50417158, elapsed 0.1s, est remaining 0.0s, peak mem 54MB, user 0.0s, sys 0.1s, output queue size 2094
progress 100% @chr21:34787802, elapsed 0.1s, est remaining 0.0s, peak mem 85MB, user 0.1s, 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: 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: 71699821
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 0.066 user 0.032 sys 0.106 real
calc: 5761 calls 0.010 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 0.001 user 0.001 sys 0.097 real
fetch: 5761 calls 0.001 user 0.005 sys 0.007 real
fetch_ref: 5768 calls 0.000 user 0.000 sys 0.024 real
fetch_region: 7 calls 0.000 user 0.000 sys 0.001 real
idle: 24 calls 0.007 user 0.009 sys 12.398 real
init: 1 calls 0.002 user 0.008 sys 0.002 real
region: 5761 calls 0.000 user 0.000 sys 0.004 real
tracker: 5761 calls 0.001 user 0.000 sys 0.007 real
overall: 89931776 mem 0.241 user 0.350 sys 1.150 real
ls: cannot access '*.g.vcf.gz': No such file or directory
ls: cannot access '*.g.vcf.gz.tbi': No such file or directory