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/1c/c9ea457a2b841d528add0b430e1534/.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/40/c2b0eb611467aa29ca8c1489de19bf/HCC1395_BL.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1c/c9ea457a2b841d528add0b430e1534/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/40/c2b0eb611467aa29ca8c1489de19bf/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 0.7s, peak mem 99MB, user 0.1s, sys 0.6s, output queue size 34
progress 10% @chr2:71000001, elapsed 0.1s, est remaining 0.8s, peak mem 99MB, user 0.2s, sys 2.0s, output queue size 12
progress 15% @chr2:231000001, elapsed 0.1s, est remaining 0.8s, peak mem 99MB, user 0.3s, sys 3.4s, output queue size 32
progress 20% @chr3:177000001, elapsed 0.2s, est remaining 0.7s, peak mem 99MB, user 0.4s, sys 4.9s, output queue size 40
progress 25% @chr4:109000001, elapsed 0.2s, est remaining 0.7s, peak mem 99MB, user 0.5s, sys 6.3s, output queue size 17
progress 30% @chr5:82000001, elapsed 0.3s, est remaining 0.7s, peak mem 99MB, user 0.6s, sys 7.6s, output queue size 15
progress 35% @chr6:60000001, elapsed 0.3s, est remaining 0.6s, peak mem 99MB, user 0.7s, sys 9.0s, output queue size 11
progress 40% @chr7:54000001, elapsed 0.4s, est remaining 0.6s, peak mem 99MB, user 0.8s, sys 10.4s, output queue size 11
progress 45% @chr8:47000001, elapsed 0.4s, est remaining 0.5s, peak mem 99MB, user 0.9s, sys 11.8s, output queue size 28
progress 50% @chr9:100000001, elapsed 0.5s, est remaining 0.5s, peak mem 99MB, user 1.0s, sys 13.1s, output queue size 7
progress 55% @chr10:83000001, elapsed 0.5s, est remaining 0.4s, peak mem 99MB, user 1.1s, sys 14.5s, output queue size 18
progress 60% @chr12:11000001, elapsed 0.6s, est remaining 0.4s, peak mem 99MB, user 1.2s, sys 15.9s, output queue size 11
progress 65% @chr13:9000001, elapsed 0.6s, est remaining 0.3s, peak mem 99MB, user 1.3s, sys 17.3s, output queue size 13
progress 70% @chr14:60000001, elapsed 0.7s, est remaining 0.3s, peak mem 99MB, user 1.4s, sys 18.8s, output queue size 8
progress 75% @chr16:10000001, elapsed 0.7s, est remaining 0.2s, peak mem 99MB, user 1.5s, sys 20.2s, output queue size 25
progress 80% @chr17:82000001, elapsed 0.8s, est remaining 0.2s, peak mem 99MB, user 1.6s, sys 21.6s, output queue size 19
progress 85% @chr20:20000001, elapsed 0.8s, est remaining 0.1s, peak mem 99MB, user 1.7s, sys 23.0s, output queue size 8
progress 90% @chrX:31000001, elapsed 0.9s, est remaining 0.1s, peak mem 111MB, user 2.1s, sys 23.9s, output queue size 114
progress 95% @chrY:28000001, elapsed 0.9s, est remaining 0.0s, peak mem 126MB, user 2.5s, sys 25.2s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.4s, est remaining 0.0s, peak mem 150MB, user 3.7s, sys 27.3s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 31 max 384
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 51395348
reads: 1001089
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.153 user 13.858 sys 15.426 real
done: 1 calls 0.000 user 0.003 sys 0.009 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.002 user 0.001 sys 1.425 real
idle: 78 calls 0.008 user 0.023 sys 42.914 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 157360128 mem 3.892 user 27.864 sys 2.573 real