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/66/aa7444de3ed92c20ae8a30e27ea34f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ba/64a6bea760832d59a43a4ef754f9ac/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/66/aa7444de3ed92c20ae8a30e27ea34f/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ba/64a6bea760832d59a43a4ef754f9ac/Sig_18_tissue.md.bam
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/altera_v3_targets_noncoding_postQC_hg38.bed
  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_noncoding_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_noncoding_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:163000001, elapsed 0.0s, est remaining 0.7s, peak mem 102MB, user 0.7s, sys 0.2s, output queue size 16
progress 10% @chr2:72000001, elapsed 0.1s, est remaining 0.7s, peak mem 102MB, user 1.6s, sys 0.2s, output queue size 22
progress 15% @chr2:227000001, elapsed 0.1s, est remaining 0.6s, peak mem 102MB, user 2.7s, sys 0.3s, output queue size 20
progress 20% @chr3:155000001, elapsed 0.1s, est remaining 0.6s, peak mem 102MB, user 3.7s, sys 0.3s, output queue size 24
progress 25% @chr4:111000001, elapsed 0.2s, est remaining 0.5s, peak mem 102MB, user 4.8s, sys 0.4s, output queue size 16
progress 30% @chr5:91000001, elapsed 0.2s, est remaining 0.5s, peak mem 102MB, user 5.7s, sys 0.5s, output queue size 14
progress 35% @chr6:63000001, elapsed 0.3s, est remaining 0.5s, peak mem 102MB, user 6.7s, sys 0.6s, output queue size 11
progress 40% @chr7:52000001, elapsed 0.3s, est remaining 0.4s, peak mem 102MB, user 7.7s, sys 0.6s, output queue size 8
progress 45% @chr8:58000001, elapsed 0.3s, est remaining 0.4s, peak mem 102MB, user 8.8s, sys 0.7s, output queue size 7
progress 50% @chr9:70000001, elapsed 0.4s, est remaining 0.4s, peak mem 102MB, user 9.8s, sys 0.8s, output queue size 9
progress 55% @chr10:95000001, elapsed 0.4s, est remaining 0.3s, peak mem 102MB, user 10.8s, sys 0.8s, output queue size 3
progress 60% @chr11:124000001, elapsed 0.4s, est remaining 0.3s, peak mem 102MB, user 11.8s, sys 0.9s, output queue size 4
progress 65% @chr13:14000001, elapsed 0.5s, est remaining 0.2s, peak mem 102MB, user 12.7s, sys 1.0s, output queue size 1
progress 70% @chr14:61000001, elapsed 0.5s, est remaining 0.2s, peak mem 102MB, user 13.8s, sys 1.1s, output queue size 3
progress 75% @chr16:10000001, elapsed 0.5s, est remaining 0.2s, peak mem 102MB, user 14.8s, sys 1.1s, output queue size 4
progress 80% @chr17:82000001, elapsed 0.6s, est remaining 0.1s, peak mem 102MB, user 15.8s, sys 1.2s, output queue size 2
progress 85% @chr20:27000001, elapsed 0.6s, est remaining 0.1s, peak mem 102MB, user 16.8s, sys 1.3s, output queue size 25
progress 90% @chrX:35000001, elapsed 0.7s, est remaining 0.1s, peak mem 139MB, user 17.6s, sys 1.5s, output queue size 114
progress 95% @chrY:35000001, elapsed 0.7s, est remaining 0.0s, peak mem 154MB, user 18.6s, sys 1.6s, output queue size 271
progress 100% @chr21:41000001, elapsed 1.1s, est remaining 0.0s, peak mem 159MB, user 20.2s, sys 1.7s, 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 192
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 50045074
reads: 1001838
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.005 user 0.937 sys 2.287 real
done: 1 calls 0.000 user 0.000 sys 0.003 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.005 user 0.001 sys 1.128 real
idle: 75 calls 0.011 user 0.002 sys 42.815 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 166731776 mem 20.947 user 1.866 sys 2.281 real