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/a8/2207addeb2a3366c9c8826e8c910f3/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6e/8467a0f89a3b28cafdce3f1ccefdce/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/a8/2207addeb2a3366c9c8826e8c910f3/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6e/8467a0f89a3b28cafdce3f1ccefdce/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% @chr1:165000001, elapsed 0.0s, est remaining 0.6s, peak mem 111MB, user 0.1s, sys 0.7s, output queue size 14
progress 10% @chr2:75000001, elapsed 0.1s, est remaining 0.6s, peak mem 111MB, user 0.1s, sys 1.5s, output queue size 12
progress 15% @chr2:235000001, elapsed 0.1s, est remaining 0.5s, peak mem 111MB, user 0.2s, sys 2.4s, output queue size 21
progress 20% @chr3:156000001, elapsed 0.1s, est remaining 0.5s, peak mem 111MB, user 0.3s, sys 3.1s, output queue size 11
progress 25% @chr4:93000001, elapsed 0.2s, est remaining 0.5s, peak mem 111MB, user 0.5s, sys 3.9s, output queue size 22
progress 30% @chr5:81000001, elapsed 0.2s, est remaining 0.4s, peak mem 111MB, user 0.5s, sys 4.8s, output queue size 5
progress 35% @chr6:64000001, elapsed 0.2s, est remaining 0.4s, peak mem 111MB, user 0.6s, sys 5.6s, output queue size 3
progress 40% @chr7:54000001, elapsed 0.2s, est remaining 0.4s, peak mem 111MB, user 0.7s, sys 6.5s, output queue size 3
progress 45% @chr8:57000001, elapsed 0.3s, est remaining 0.3s, peak mem 111MB, user 0.8s, sys 7.3s, output queue size 15
progress 50% @chr9:71000001, elapsed 0.3s, est remaining 0.3s, peak mem 111MB, user 0.8s, sys 8.2s, output queue size 15
progress 55% @chr10:93000001, elapsed 0.3s, est remaining 0.3s, peak mem 111MB, user 0.9s, sys 9.0s, output queue size 2
progress 60% @chr11:117000001, elapsed 0.4s, est remaining 0.2s, peak mem 111MB, user 1.0s, sys 9.8s, output queue size 6
progress 65% @chr13:14000001, elapsed 0.4s, est remaining 0.2s, peak mem 111MB, user 1.1s, sys 10.5s, output queue size 2
progress 70% @chr14:46000001, elapsed 0.4s, est remaining 0.2s, peak mem 111MB, user 1.2s, sys 11.4s, output queue size 15
progress 75% @chr16:13000001, elapsed 0.4s, est remaining 0.1s, peak mem 111MB, user 1.3s, sys 12.2s, output queue size 23
progress 80% @chr17:81000001, elapsed 0.5s, est remaining 0.1s, peak mem 111MB, user 1.4s, sys 12.9s, output queue size 12
progress 85% @chr20:21000001, elapsed 0.5s, est remaining 0.1s, peak mem 111MB, user 1.5s, sys 13.7s, output queue size 2
progress 90% @chrX:40000001, elapsed 0.6s, est remaining 0.1s, peak mem 132MB, user 1.9s, sys 14.2s, output queue size 114
progress 95% @chrY:35000001, elapsed 0.6s, est remaining 0.0s, peak mem 144MB, user 2.4s, sys 14.9s, output queue size 271
progress 100% @chr21:41000001, elapsed 1.2s, est remaining 0.0s, peak mem 156MB, user 4.0s, sys 15.9s, output queue size 3664
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: 31 max 384
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 50047059
reads: 1001838
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.198 user 7.798 sys 9.569 real
done: 1 calls 0.005 user 0.008 sys 0.017 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.007 user 0.002 sys 1.189 real
idle: 78 calls 0.009 user 0.019 sys 46.815 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 163733504 mem 4.491 user 16.501 sys 2.668 real