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/80/11dea245b8d33a41aa4cb8f93188b5/.command.sh
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/altera_v3_targets_coding_postQC_hg38.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/e5/5e14d3c54516fce231a15f3d7307d2/HCC1395_BL.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/11dea245b8d33a41aa4cb8f93188b5/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e5/5e14d3c54516fce231a15f3d7307d2/HCC1395_BL.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.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_coding_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_coding_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 0.8s, peak mem 99MB, user 0.1s, sys 0.8s, output queue size 16
progress 10% @chr2:76000001, elapsed 0.1s, est remaining 0.7s, peak mem 99MB, user 0.2s, sys 1.8s, output queue size 1
progress 15% @chr2:237000001, elapsed 0.1s, est remaining 0.6s, peak mem 99MB, user 0.3s, sys 2.7s, output queue size 20
progress 20% @chr3:156000001, elapsed 0.1s, est remaining 0.6s, peak mem 99MB, user 0.3s, sys 3.8s, output queue size 21
progress 25% @chr4:118000001, elapsed 0.2s, est remaining 0.5s, peak mem 99MB, user 0.4s, sys 4.8s, output queue size 10
progress 30% @chr5:75000001, elapsed 0.2s, est remaining 0.5s, peak mem 99MB, user 0.4s, sys 5.9s, output queue size 11
progress 35% @chr6:66000001, elapsed 0.2s, est remaining 0.5s, peak mem 99MB, user 0.5s, sys 6.8s, output queue size 27
progress 40% @chr7:57000001, elapsed 0.3s, est remaining 0.4s, peak mem 99MB, user 0.5s, sys 7.8s, output queue size 15
progress 45% @chr8:50000001, elapsed 0.3s, est remaining 0.4s, peak mem 99MB, user 0.6s, sys 8.9s, output queue size 7
progress 50% @chr9:73000001, elapsed 0.4s, est remaining 0.4s, peak mem 99MB, user 0.6s, sys 10.0s, output queue size 6
progress 55% @chr10:96000001, elapsed 0.4s, est remaining 0.3s, peak mem 99MB, user 0.7s, sys 11.0s, output queue size 7
progress 60% @chr11:119000001, elapsed 0.4s, est remaining 0.3s, peak mem 99MB, user 0.8s, sys 12.1s, output queue size 14
progress 65% @chr13:12000001, elapsed 0.5s, est remaining 0.3s, peak mem 99MB, user 1.0s, sys 13.1s, output queue size 3
progress 70% @chr14:61000001, elapsed 0.5s, est remaining 0.2s, peak mem 99MB, user 1.1s, sys 14.2s, output queue size 4
progress 75% @chr16:12000001, elapsed 0.5s, est remaining 0.2s, peak mem 99MB, user 1.1s, sys 15.2s, output queue size 6
progress 80% @chr17:82000001, elapsed 0.6s, est remaining 0.1s, peak mem 99MB, user 1.2s, sys 16.4s, output queue size 2
progress 85% @chr20:25000001, elapsed 0.6s, est remaining 0.1s, peak mem 99MB, user 1.3s, sys 17.4s, output queue size 18
progress 90% @chrX:34000001, elapsed 0.7s, est remaining 0.1s, peak mem 121MB, user 1.7s, sys 18.4s, output queue size 114
progress 95% @chrY:34000001, elapsed 0.7s, est remaining 0.0s, peak mem 135MB, user 2.0s, sys 19.4s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.1s, est remaining 0.0s, peak mem 160MB, user 3.0s, sys 21.3s, 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 192
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 51395354
reads: 1001089
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.061 user 10.950 sys 12.587 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 0.003 user 0.001 sys 1.078 real
idle: 74 calls 0.006 user 0.013 sys 38.911 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 168546304 mem 3.166 user 21.745 sys 2.219 real