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/d5/8a9375dde7c8244af0eff227d9ca53/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/85/4009f8e4e38d24d0dcfb31a137bd0e/Sig_18_tissue.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_footprint.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/d5/8a9375dde7c8244af0eff227d9ca53/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/85/4009f8e4e38d24d0dcfb31a137bd0e/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_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.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_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:186000001, elapsed 0.1s, est remaining 1.3s, peak mem 120MB, user 0.2s, sys 1.3s, output queue size 29
progress 10% @chr2:97000001, elapsed 0.1s, est remaining 1.1s, peak mem 120MB, user 0.4s, sys 3.0s, output queue size 34
progress 15% @chr2:204000001, elapsed 0.2s, est remaining 1.0s, peak mem 120MB, user 0.5s, sys 4.6s, output queue size 37
progress 20% @chr3:177000001, elapsed 0.2s, est remaining 1.0s, peak mem 120MB, user 0.7s, sys 6.2s, output queue size 29
progress 25% @chr4:73000001, elapsed 0.3s, est remaining 0.9s, peak mem 120MB, user 0.8s, sys 8.0s, output queue size 44
progress 30% @chr5:62000001, elapsed 0.4s, est remaining 0.8s, peak mem 120MB, user 0.8s, sys 9.6s, output queue size 50
progress 35% @chr6:42000001, elapsed 0.4s, est remaining 0.8s, peak mem 120MB, user 1.0s, sys 11.2s, output queue size 46
progress 40% @chr7:76000001, elapsed 0.5s, est remaining 0.7s, peak mem 120MB, user 1.1s, sys 13.0s, output queue size 33
progress 45% @chr8:9000001, elapsed 0.5s, est remaining 0.7s, peak mem 120MB, user 1.2s, sys 14.6s, output queue size 48
progress 50% @chr9:97000001, elapsed 0.6s, est remaining 0.6s, peak mem 120MB, user 1.4s, sys 16.2s, output queue size 39
progress 55% @chr10:60000001, elapsed 0.7s, est remaining 0.5s, peak mem 120MB, user 1.5s, sys 17.9s, output queue size 41
progress 60% @chr12:6000001, elapsed 0.7s, est remaining 0.5s, peak mem 120MB, user 1.5s, sys 19.7s, output queue size 49
progress 65% @chr12:99000001, elapsed 0.8s, est remaining 0.4s, peak mem 120MB, user 1.7s, sys 21.3s, output queue size 50
progress 70% @chr14:80000001, elapsed 0.8s, est remaining 0.4s, peak mem 120MB, user 1.8s, sys 22.8s, output queue size 48
progress 75% @chr16:33000001, elapsed 0.9s, est remaining 0.3s, peak mem 120MB, user 2.0s, sys 24.4s, output queue size 44
progress 80% @chr18:18000001, elapsed 0.9s, est remaining 0.2s, peak mem 120MB, user 2.1s, sys 26.0s, output queue size 46
progress 85% @chr20:38000001, elapsed 1.0s, est remaining 0.2s, peak mem 120MB, user 2.3s, sys 27.6s, output queue size 56
progress 90% @chrX:43000001, elapsed 1.1s, est remaining 0.1s, peak mem 126MB, user 2.9s, sys 28.9s, output queue size 114
progress 95% @chrY:47000001, elapsed 1.2s, est remaining 0.1s, peak mem 132MB, user 3.4s, sys 30.5s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.8s, est remaining 0.0s, peak mem 159MB, user 5.2s, sys 33.2s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
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 384
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 50047058
reads: 1001838
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.312 user 18.392 sys 17.334 real
done: 1 calls 0.006 user 0.000 sys 0.015 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.007 user 0.003 sys 1.805 real
idle: 80 calls 0.005 user 0.033 sys 47.501 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 166879232 mem 5.747 user 33.935 sys 3.352 real