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/dd/68c2f49e93d4c4a0f733e6b1a89100/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d5/209963df00d784fa0b6a6a6aa3d8c2/Sig_18_tissue.md.bam.bai
  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/dd/68c2f49e93d4c4a0f733e6b1a89100/.command.run
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/foresight/foresight_clarity_targets_hg38.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d5/209963df00d784fa0b6a6a6aa3d8c2/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/foresight_clarity_targets_hg38.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_foresight_clarity_targets_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:173000001, elapsed 0.0s, est remaining 0.5s, peak mem 102MB, user 0.0s, sys 0.4s, output queue size 3
progress 10% @chr2:69000001, elapsed 0.1s, est remaining 0.5s, peak mem 102MB, user 0.1s, sys 1.2s, output queue size 9
progress 15% @chr2:226000001, elapsed 0.1s, est remaining 0.4s, peak mem 102MB, user 0.1s, sys 1.8s, output queue size 9
progress 20% @chr3:174000001, elapsed 0.1s, est remaining 0.4s, peak mem 102MB, user 0.2s, sys 2.4s, output queue size 7
progress 25% @chr4:107000001, elapsed 0.1s, est remaining 0.4s, peak mem 102MB, user 0.3s, sys 3.2s, output queue size 8
progress 30% @chr5:83000001, elapsed 0.1s, est remaining 0.3s, peak mem 102MB, user 0.3s, sys 3.8s, output queue size 10
progress 35% @chr6:58000001, elapsed 0.2s, est remaining 0.3s, peak mem 102MB, user 0.5s, sys 4.5s, output queue size 7
progress 40% @chr7:46000001, elapsed 0.2s, est remaining 0.3s, peak mem 102MB, user 0.5s, sys 5.0s, output queue size 9
progress 45% @chr8:52000001, elapsed 0.2s, est remaining 0.3s, peak mem 102MB, user 0.7s, sys 5.7s, output queue size 9
progress 50% @chr9:64000001, elapsed 0.2s, est remaining 0.2s, peak mem 102MB, user 0.7s, sys 6.3s, output queue size 9
progress 55% @chr10:108000001, elapsed 0.3s, est remaining 0.2s, peak mem 102MB, user 0.8s, sys 7.0s, output queue size 15
progress 60% @chr11:115000001, elapsed 0.3s, est remaining 0.2s, peak mem 102MB, user 0.9s, sys 7.7s, output queue size 10
progress 65% @chr13:8000001, elapsed 0.3s, est remaining 0.2s, peak mem 102MB, user 1.0s, sys 8.2s, output queue size 22
progress 70% @chr14:54000001, elapsed 0.3s, est remaining 0.1s, peak mem 102MB, user 1.1s, sys 9.0s, output queue size 15
progress 75% @chr16:8000001, elapsed 0.4s, est remaining 0.1s, peak mem 102MB, user 1.2s, sys 9.5s, output queue size 29
progress 80% @chr17:73000001, elapsed 0.4s, est remaining 0.1s, peak mem 102MB, user 1.3s, sys 10.2s, output queue size 12
progress 85% @chr20:16000001, elapsed 0.4s, est remaining 0.1s, peak mem 102MB, user 1.4s, sys 10.8s, output queue size 8
progress 90% @chrX:36000001, elapsed 0.5s, est remaining 0.1s, peak mem 132MB, user 1.9s, sys 11.2s, output queue size 114
progress 95% @chrY:33000001, elapsed 0.5s, est remaining 0.0s, peak mem 144MB, user 2.3s, sys 11.7s, output queue size 276
progress 100% @chr21:41000001, elapsed 0.9s, est remaining 0.0s, peak mem 157MB, user 3.5s, sys 12.6s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000c06f2
  features: 1f8bfbff fffab20b
  extended: f1bf07ab 1a407f7e
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) Platinum 8559C
threads: 31 max 192
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 50047056
reads: 1001838
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.151 user 6.847 sys 8.162 real
done: 1 calls 0.000 user 0.000 sys 0.001 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.002 user 0.001 sys 0.873 real
idle: 82 calls 0.009 user 0.025 sys 40.874 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 165363712 mem 3.834 user 13.234 sys 2.041 real