Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e7/30cdd948475da025e2d07b62d60730/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f7/7df0dd603900a4e96831ac49153a79/Sig_18_tissue.md.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/foresight/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.bed
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta.fai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e7/30cdd948475da025e2d07b62d60730/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f7/7df0dd603900a4e96831ac49153a79/Sig_18_tissue.md.bam
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/foresight/xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity.bed
==> STAGING COMPLETE (8 inputs)

cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -r Homo_sapiens_assembly38.fasta -i Sig_18_tissue.md.bam --algo HsMetricAlgo --targets_list targets/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.bed --baits_list baits/xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity.bed Sig_18_tissue_xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:180000001, elapsed 0.0s, est remaining 0.5s, peak mem 115MB, user 0.0s, sys 0.3s, output queue size 11
progress 10% @chr2:53000001, elapsed 0.0s, est remaining 0.4s, peak mem 115MB, user 0.1s, sys 0.8s, output queue size 22
progress 15% @chr2:217000001, elapsed 0.1s, est remaining 0.4s, peak mem 115MB, user 0.2s, sys 1.3s, output queue size 18
progress 20% @chr3:136000001, elapsed 0.1s, est remaining 0.3s, peak mem 115MB, user 0.4s, sys 1.8s, output queue size 20
progress 25% @chr4:130000001, elapsed 0.1s, est remaining 0.3s, peak mem 115MB, user 0.4s, sys 2.4s, output queue size 17
progress 30% @chr5:73000001, elapsed 0.1s, est remaining 0.3s, peak mem 115MB, user 0.5s, sys 2.9s, output queue size 17
progress 35% @chr6:81000001, elapsed 0.1s, est remaining 0.3s, peak mem 115MB, user 0.6s, sys 3.4s, output queue size 16
progress 40% @chr7:66000001, elapsed 0.2s, est remaining 0.2s, peak mem 115MB, user 0.6s, sys 4.0s, output queue size 16
progress 45% @chr8:79000001, elapsed 0.2s, est remaining 0.2s, peak mem 115MB, user 0.7s, sys 4.6s, output queue size 16
progress 50% @chr9:86000001, elapsed 0.2s, est remaining 0.2s, peak mem 115MB, user 0.7s, sys 5.1s, output queue size 18
progress 55% @chr10:77000001, elapsed 0.2s, est remaining 0.2s, peak mem 115MB, user 0.8s, sys 5.6s, output queue size 21
progress 60% @chr11:105000001, elapsed 0.2s, est remaining 0.2s, peak mem 115MB, user 0.9s, sys 6.2s, output queue size 18
progress 65% @chr12:131000001, elapsed 0.3s, est remaining 0.1s, peak mem 115MB, user 1.1s, sys 6.6s, output queue size 18
progress 70% @chr14:79000001, elapsed 0.3s, est remaining 0.1s, peak mem 115MB, user 1.2s, sys 7.1s, output queue size 16
progress 75% @chr16:30000001, elapsed 0.3s, est remaining 0.1s, peak mem 115MB, user 1.2s, sys 7.7s, output queue size 18
progress 80% @chr17:66000001, elapsed 0.3s, est remaining 0.1s, peak mem 115MB, user 1.3s, sys 8.3s, output queue size 18
progress 85% @chr20:39000001, elapsed 0.4s, est remaining 0.1s, peak mem 115MB, user 1.3s, sys 8.8s, output queue size 24
progress 90% @chrX:41000001, elapsed 0.4s, est remaining 0.0s, peak mem 145MB, user 1.7s, sys 9.2s, output queue size 114
progress 95% @chrY:33000001, elapsed 0.4s, est remaining 0.0s, peak mem 166MB, user 2.3s, sys 9.5s, output queue size 271
progress 100% @chr21:41000001, elapsed 1.0s, est remaining 0.0s, peak mem 174MB, user 4.1s, sys 9.9s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000c06f2
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: INTEL(R) XEON(R) PLATINUM 8559C
threads: 31 max 192
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 50047062
reads: 1001838
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.200 user 5.085 sys 6.587 real
done: 1 calls 0.003 user 0.000 sys 0.009 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.005 user 0.003 sys 0.980 real
idle: 75 calls 0.020 user 0.017 sys 46.003 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 182624256 mem 4.650 user 10.676 sys 2.479 real