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/ba/39b2ecef5d17b966c33cd7fc88de11/.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/altera_v3_targets_coding_postQC_hg38.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/ba/39b2ecef5d17b966c33cd7fc88de11/.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/altera_v3_targets_coding_postQC_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_altera_v3_targets_coding_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:157000001, elapsed 0.0s, est remaining 0.5s, peak mem 100MB, user 0.1s, sys 0.3s, output queue size 30
progress 10% @chr2:71000001, elapsed 0.0s, est remaining 0.4s, peak mem 100MB, user 0.1s, sys 0.9s, output queue size 9
progress 15% @chr3:7000001, elapsed 0.1s, est remaining 0.4s, peak mem 100MB, user 0.1s, sys 1.5s, output queue size 7
progress 20% @chr3:147000001, elapsed 0.1s, est remaining 0.4s, peak mem 100MB, user 0.2s, sys 2.2s, output queue size 32
progress 25% @chr4:111000001, elapsed 0.1s, est remaining 0.3s, peak mem 100MB, user 0.2s, sys 2.8s, output queue size 6
progress 30% @chr5:82000001, elapsed 0.1s, est remaining 0.3s, peak mem 100MB, user 0.3s, sys 3.4s, output queue size 5
progress 35% @chr6:61000001, elapsed 0.2s, est remaining 0.3s, peak mem 100MB, user 0.3s, sys 3.9s, output queue size 31
progress 40% @chr7:51000001, elapsed 0.2s, est remaining 0.3s, peak mem 100MB, user 0.4s, sys 4.5s, output queue size 8
progress 45% @chr8:51000001, elapsed 0.2s, est remaining 0.2s, peak mem 100MB, user 0.5s, sys 5.0s, output queue size 10
progress 50% @chr9:69000001, elapsed 0.2s, est remaining 0.2s, peak mem 100MB, user 0.5s, sys 5.7s, output queue size 5
progress 55% @chr10:112000001, elapsed 0.2s, est remaining 0.2s, peak mem 100MB, user 0.6s, sys 6.3s, output queue size 8
progress 60% @chr12:1000001, elapsed 0.3s, est remaining 0.2s, peak mem 100MB, user 0.6s, sys 6.9s, output queue size 7
progress 65% @chr13:10000001, elapsed 0.3s, est remaining 0.2s, peak mem 100MB, user 0.7s, sys 7.5s, output queue size 26
progress 70% @chr14:56000001, elapsed 0.3s, est remaining 0.1s, peak mem 100MB, user 0.7s, sys 8.1s, output queue size 15
progress 75% @chr16:35000001, elapsed 0.3s, est remaining 0.1s, peak mem 100MB, user 0.8s, sys 8.6s, output queue size 6
progress 80% @chr17:80000001, elapsed 0.3s, est remaining 0.1s, peak mem 100MB, user 0.9s, sys 9.2s, output queue size 5
progress 85% @chr20:20000001, elapsed 0.4s, est remaining 0.1s, peak mem 100MB, user 0.9s, sys 9.9s, output queue size 13
progress 90% @chrX:38000001, elapsed 0.4s, est remaining 0.0s, peak mem 132MB, user 1.3s, sys 10.2s, output queue size 114
progress 95% @chrY:44000001, elapsed 0.4s, est remaining 0.0s, peak mem 144MB, user 1.6s, sys 10.7s, output queue size 276
progress 100% @chr21:41000001, elapsed 0.8s, est remaining 0.0s, peak mem 160MB, user 2.8s, sys 11.6s, 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 1.211 user 6.015 sys 7.339 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 0.004 user 0.001 sys 0.754 real
idle: 78 calls 0.008 user 0.021 sys 38.978 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 169984000 mem 3.044 user 12.057 sys 1.913 real