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/b5/c765697d9fc8265dc86bf258cea298/.command.sh
  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/b5/c765697d9fc8265dc86bf258cea298/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/e8f9452ffe2420eb8808ba1556b1dd/Sig_18_Blood.md.bam
  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/f4/e8f9452ffe2420eb8808ba1556b1dd/Sig_18_Blood.md.bam.bai
  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_Blood.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_Blood_foresight_clarity_targets_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
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Received only 14 licenses out of 31 requested for sentieon:Metrics
progress 5% @chr1:159000001, elapsed 840.2s, est remaining 15963.4s, peak mem 100MB, user 0.2s, sys 0.3s, output queue size 2
progress 10% @chr2:71000001, elapsed 840.2s, est remaining 7562.0s, peak mem 100MB, user 0.4s, sys 0.7s, output queue size 2
progress 15% @chr2:232000001, elapsed 840.3s, est remaining 4761.5s, peak mem 100MB, user 0.6s, sys 1.0s, output queue size 2
progress 20% @chr3:152000001, elapsed 840.3s, est remaining 3361.2s, peak mem 100MB, user 0.7s, sys 1.4s, output queue size 1
progress 25% @chr4:115000001, elapsed 840.3s, est remaining 2521.0s, peak mem 100MB, user 0.9s, sys 1.8s, output queue size 1
progress 30% @chr5:86000001, elapsed 840.4s, est remaining 1960.9s, peak mem 100MB, user 1.0s, sys 2.3s, output queue size 1
progress 35% @chr6:63000001, elapsed 840.4s, est remaining 1560.8s, peak mem 100MB, user 1.3s, sys 2.6s, output queue size 2
progress 40% @chr7:54000001, elapsed 840.5s, est remaining 1260.7s, peak mem 100MB, user 1.5s, sys 2.9s, output queue size 1
progress 45% @chr8:57000001, elapsed 840.5s, est remaining 1027.3s, peak mem 100MB, user 1.6s, sys 3.3s, output queue size 1
progress 50% @chr9:66000001, elapsed 840.6s, est remaining 840.6s, peak mem 100MB, user 1.8s, sys 3.6s, output queue size 7
progress 55% @chr10:95000001, elapsed 840.6s, est remaining 687.8s, peak mem 100MB, user 2.0s, sys 4.0s, output queue size 1
progress 60% @chr11:121000001, elapsed 840.6s, est remaining 560.4s, peak mem 100MB, user 2.1s, sys 4.4s, output queue size 1
progress 65% @chr13:17000001, elapsed 840.7s, est remaining 452.7s, peak mem 100MB, user 2.4s, sys 4.7s, output queue size 1
progress 70% @chr14:60000001, elapsed 840.7s, est remaining 360.3s, peak mem 100MB, user 2.6s, sys 5.0s, output queue size 1
progress 75% @chr16:14000001, elapsed 840.8s, est remaining 280.3s, peak mem 100MB, user 2.9s, sys 5.2s, output queue size 1
progress 80% @chr18:1, elapsed 840.8s, est remaining 210.2s, peak mem 100MB, user 3.1s, sys 5.5s, output queue size 6
progress 85% @chr20:21000001, elapsed 840.8s, est remaining 148.4s, peak mem 100MB, user 3.3s, sys 5.9s, output queue size 1
progress 90% @chr21:38000001, elapsed 841.0s, est remaining 93.4s, peak mem 153MB, user 4.4s, sys 6.1s, output queue size 109
progress 95% @chrY:28000001, elapsed 841.0s, est remaining 44.3s, peak mem 154MB, user 5.0s, sys 6.4s, output queue size 240
progress 100% @chr21:41000001, elapsed 841.3s, est remaining 0.0s, peak mem 160MB, user 5.9s, sys 6.6s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: 1f8bfbff fffab20b
  extended: f1bf27eb 1b407f7e
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 31 max 192
algo: HsMetricAlgo
license: sentieon:Metrics=14
input file size: 52290604
reads: 1001133
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 2.128 user 3.203 sys 5.695 real
done: 1 calls 0.003 user 0.000 sys 0.003 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.004 user 0.002 sys 841.351 real
idle: 44 calls 0.003 user 0.002 sys 826.809 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 168583168 mem 6.380 user 7.106 sys 900.284 real