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/db/18c9333b05a94435f70ea81f30a700/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/09/33bfa0cf2b5490ffed2a2569edbe9c/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/db/18c9333b05a94435f70ea81f30a700/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/09/33bfa0cf2b5490ffed2a2569edbe9c/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
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.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_minus_altera_v3_targets_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_xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:169000001, elapsed 0.0s, est remaining 0.5s, peak mem 114MB, user 0.1s, sys 0.4s, output queue size 5
progress 10% @chr2:77000001, elapsed 0.1s, est remaining 0.5s, peak mem 114MB, user 0.2s, sys 1.0s, output queue size 23
progress 15% @chr2:238000001, elapsed 0.1s, est remaining 0.4s, peak mem 114MB, user 0.3s, sys 1.8s, output queue size 18
progress 20% @chr3:155000001, elapsed 0.1s, est remaining 0.4s, peak mem 114MB, user 0.3s, sys 2.4s, output queue size 18
progress 25% @chr4:117000001, elapsed 0.1s, est remaining 0.4s, peak mem 114MB, user 0.4s, sys 3.1s, output queue size 15
progress 30% @chr5:92000001, elapsed 0.2s, est remaining 0.4s, peak mem 114MB, user 0.5s, sys 3.8s, output queue size 18
progress 35% @chr6:52000001, elapsed 0.2s, est remaining 0.3s, peak mem 114MB, user 0.6s, sys 4.4s, output queue size 18
progress 40% @chr7:45000001, elapsed 0.2s, est remaining 0.3s, peak mem 114MB, user 0.6s, sys 5.2s, output queue size 13
progress 45% @chr8:58000001, elapsed 0.2s, est remaining 0.3s, peak mem 114MB, user 0.7s, sys 5.8s, output queue size 6
progress 50% @chr9:75000001, elapsed 0.3s, est remaining 0.3s, peak mem 114MB, user 0.7s, sys 6.5s, output queue size 9
progress 55% @chr10:97000001, elapsed 0.3s, est remaining 0.2s, peak mem 114MB, user 0.8s, sys 7.2s, output queue size 3
progress 60% @chr11:122000001, elapsed 0.3s, est remaining 0.2s, peak mem 114MB, user 0.9s, sys 7.9s, output queue size 5
progress 65% @chr13:15000001, elapsed 0.3s, est remaining 0.2s, peak mem 114MB, user 0.9s, sys 8.7s, output queue size 2
progress 70% @chr14:63000001, elapsed 0.4s, est remaining 0.2s, peak mem 114MB, user 1.1s, sys 9.1s, output queue size 15
progress 75% @chr16:11000001, elapsed 0.4s, est remaining 0.1s, peak mem 114MB, user 1.3s, sys 9.8s, output queue size 8
progress 80% @chr17:82000001, elapsed 0.4s, est remaining 0.1s, peak mem 114MB, user 1.3s, sys 10.4s, output queue size 6
progress 85% @chr20:14000001, elapsed 0.4s, est remaining 0.1s, peak mem 114MB, user 1.4s, sys 11.2s, output queue size 8
progress 90% @chrX:39000001, elapsed 0.5s, est remaining 0.1s, peak mem 148MB, user 1.8s, sys 11.6s, output queue size 114
progress 95% @chrY:35000001, elapsed 0.5s, est remaining 0.0s, peak mem 169MB, user 2.3s, sys 12.1s, output queue size 271
progress 100% @chr21:41000001, elapsed 0.8s, est remaining 0.0s, peak mem 174MB, user 3.6s, sys 12.7s, 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=31
input file size: 50047063
reads: 1001838
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.165 user 6.629 sys 7.764 real
done: 1 calls 0.001 user 0.000 sys 0.008 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.005 user 0.002 sys 0.823 real
idle: 75 calls 0.011 user 0.013 sys 38.957 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 182738944 mem 4.083 user 13.450 sys 2.279 real