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/3b/e68fa42890eadd83343560b600889c/.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/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/3b/e68fa42890eadd83343560b600889c/.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
==> 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% @chr1:152000001, elapsed 0.0s, est remaining 0.5s, peak mem 114MB, user 0.0s, sys 0.5s, output queue size 17
progress 10% @chr2:92000001, elapsed 0.1s, est remaining 0.5s, peak mem 114MB, user 0.1s, sys 1.0s, output queue size 33
progress 15% @chr2:227000001, elapsed 0.1s, est remaining 0.4s, peak mem 114MB, user 0.2s, sys 1.7s, output queue size 10
progress 20% @chr3:146000001, elapsed 0.1s, est remaining 0.4s, peak mem 114MB, user 0.3s, sys 2.4s, output queue size 8
progress 25% @chr4:132000001, elapsed 0.1s, est remaining 0.4s, peak mem 114MB, user 0.3s, sys 3.0s, output queue size 22
progress 30% @chr5:105000001, elapsed 0.1s, est remaining 0.3s, peak mem 114MB, user 0.4s, sys 3.7s, output queue size 8
progress 35% @chr6:55000001, elapsed 0.2s, est remaining 0.3s, peak mem 114MB, user 0.4s, sys 4.3s, output queue size 10
progress 40% @chr7:34000001, elapsed 0.2s, est remaining 0.3s, peak mem 114MB, user 0.5s, sys 4.9s, output queue size 21
progress 45% @chr8:71000001, elapsed 0.2s, est remaining 0.3s, peak mem 114MB, user 0.6s, sys 5.6s, output queue size 31
progress 50% @chr9:30000001, elapsed 0.2s, est remaining 0.2s, peak mem 114MB, user 0.7s, sys 6.2s, output queue size 43
progress 55% @chr10:86000001, elapsed 0.3s, est remaining 0.2s, peak mem 114MB, user 0.7s, sys 6.8s, output queue size 10
progress 60% @chr11:116000001, elapsed 0.3s, est remaining 0.2s, peak mem 114MB, user 0.8s, sys 7.6s, output queue size 10
progress 65% @chr13:40000001, elapsed 0.3s, est remaining 0.2s, peak mem 114MB, user 0.8s, sys 8.2s, output queue size 23
progress 70% @chr14:57000001, elapsed 0.3s, est remaining 0.1s, peak mem 114MB, user 0.9s, sys 8.8s, output queue size 17
progress 75% @chr16:3000001, elapsed 0.4s, est remaining 0.1s, peak mem 114MB, user 1.1s, sys 9.4s, output queue size 14
progress 80% @chr17:78000001, elapsed 0.4s, est remaining 0.1s, peak mem 114MB, user 1.1s, sys 10.0s, output queue size 34
progress 85% @chr20:14000001, elapsed 0.4s, est remaining 0.1s, peak mem 114MB, user 1.2s, sys 10.7s, output queue size 9
progress 90% @chrX:41000001, elapsed 0.5s, est remaining 0.1s, peak mem 142MB, user 1.5s, sys 11.0s, output queue size 114
progress 95% @chrY:36000001, elapsed 0.5s, est remaining 0.0s, peak mem 159MB, user 2.0s, sys 11.5s, output queue size 271
progress 100% @chr21:41000001, elapsed 1.1s, est remaining 0.0s, peak mem 172MB, user 4.0s, sys 12.0s, 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: 50047063
reads: 1001838
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.282 user 6.089 sys 7.624 real
done: 1 calls 0.000 user 0.010 sys 0.012 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.007 user 0.003 sys 1.072 real
idle: 79 calls 0.012 user 0.024 sys 47.010 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 180916224 mem 4.515 user 12.672 sys 2.566 real