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/66/8e5bc91b2de9cdf38655277fbde485/.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/59/bc5e7b7f2c48b2e51fd97162601462/HCC1395_BL.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/66/8e5bc91b2de9cdf38655277fbde485/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/59/bc5e7b7f2c48b2e51fd97162601462/HCC1395_BL.md.bam.bai
  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 HCC1395_BL.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 HCC1395_BL_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:160000001, elapsed 0.0s, est remaining 0.5s, peak mem 101MB, user 0.1s, sys 0.3s, output queue size 4
progress 10% @chr2:71000001, elapsed 0.0s, est remaining 0.4s, peak mem 101MB, user 0.2s, sys 0.8s, output queue size 2
progress 15% @chr2:232000001, elapsed 0.1s, est remaining 0.4s, peak mem 101MB, user 0.3s, sys 1.4s, output queue size 4
progress 20% @chr3:154000001, elapsed 0.1s, est remaining 0.4s, peak mem 101MB, user 0.4s, sys 2.0s, output queue size 4
progress 25% @chr4:117000001, elapsed 0.1s, est remaining 0.3s, peak mem 101MB, user 0.5s, sys 2.5s, output queue size 4
progress 30% @chr5:83000001, elapsed 0.1s, est remaining 0.3s, peak mem 101MB, user 0.6s, sys 3.0s, output queue size 3
progress 35% @chr6:63000001, elapsed 0.2s, est remaining 0.3s, peak mem 101MB, user 0.7s, sys 3.6s, output queue size 3
progress 40% @chr7:49000001, elapsed 0.2s, est remaining 0.3s, peak mem 101MB, user 0.8s, sys 4.2s, output queue size 6
progress 45% @chr8:59000001, elapsed 0.2s, est remaining 0.2s, peak mem 101MB, user 0.9s, sys 4.9s, output queue size 1
progress 50% @chr9:76000001, elapsed 0.2s, est remaining 0.2s, peak mem 101MB, user 1.0s, sys 5.4s, output queue size 3
progress 55% @chr10:89000001, elapsed 0.2s, est remaining 0.2s, peak mem 101MB, user 1.1s, sys 5.9s, output queue size 6
progress 60% @chr11:128000001, elapsed 0.3s, est remaining 0.2s, peak mem 101MB, user 1.2s, sys 6.4s, output queue size 12
progress 65% @chr13:11000001, elapsed 0.3s, est remaining 0.2s, peak mem 101MB, user 1.2s, sys 7.2s, output queue size 4
progress 70% @chr14:59000001, elapsed 0.3s, est remaining 0.1s, peak mem 101MB, user 1.3s, sys 7.8s, output queue size 3
progress 75% @chr16:8000001, elapsed 0.3s, est remaining 0.1s, peak mem 101MB, user 1.4s, sys 8.3s, output queue size 5
progress 80% @chr18:3000001, elapsed 0.4s, est remaining 0.1s, peak mem 101MB, user 1.5s, sys 8.9s, output queue size 7
progress 85% @chr20:21000001, elapsed 0.4s, est remaining 0.1s, peak mem 101MB, user 1.6s, sys 9.5s, output queue size 2
progress 90% @chrX:34000001, elapsed 0.4s, est remaining 0.0s, peak mem 128MB, user 2.1s, sys 9.9s, output queue size 114
progress 95% @chrY:34000001, elapsed 0.5s, est remaining 0.0s, peak mem 140MB, user 2.4s, sys 10.4s, output queue size 276
progress 100% @chr21:41000001, elapsed 0.9s, est remaining 0.0s, peak mem 163MB, user 3.8s, sys 11.1s, 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: 51395360
reads: 1001089
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.368 user 5.620 sys 7.670 real
done: 1 calls 0.000 user 0.000 sys 0.002 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.003 user 0.001 sys 0.918 real
idle: 73 calls 0.009 user 0.015 sys 43.230 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 171372544 mem 4.121 user 11.868 sys 2.089 real