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/aa/4a72a2d5805b0adb4aa6e017f28624/.command.sh
  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/aa/4a72a2d5805b0adb4aa6e017f28624/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/24/48e31ffd7e189eae543e1792f9c5e0/HCC1395_tumor.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/24/48e31ffd7e189eae543e1792f9c5e0/HCC1395_tumor.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_tumor.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 HCC1395_tumor_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% @chr1:161000001, elapsed 0.0s, est remaining 0.5s, peak mem 118MB, user 0.1s, sys 0.2s, output queue size 4
progress 10% @chr2:73000001, elapsed 0.0s, est remaining 0.4s, peak mem 118MB, user 0.2s, sys 0.8s, output queue size 21
progress 15% @chr2:234000001, elapsed 0.1s, est remaining 0.4s, peak mem 118MB, user 0.3s, sys 1.4s, output queue size 28
progress 20% @chr3:152000001, elapsed 0.1s, est remaining 0.3s, peak mem 118MB, user 0.5s, sys 1.8s, output queue size 14
progress 25% @chr4:113000001, elapsed 0.1s, est remaining 0.3s, peak mem 118MB, user 0.7s, sys 2.2s, output queue size 30
progress 30% @chr5:87000001, elapsed 0.1s, est remaining 0.3s, peak mem 118MB, user 1.0s, sys 2.5s, output queue size 8
progress 35% @chr6:64000001, elapsed 0.1s, est remaining 0.3s, peak mem 118MB, user 1.0s, sys 3.1s, output queue size 15
progress 40% @chr7:54000001, elapsed 0.2s, est remaining 0.3s, peak mem 118MB, user 1.1s, sys 3.7s, output queue size 28
progress 45% @chr8:56000001, elapsed 0.2s, est remaining 0.2s, peak mem 118MB, user 1.2s, sys 4.2s, output queue size 6
progress 50% @chr9:70000001, elapsed 0.2s, est remaining 0.2s, peak mem 118MB, user 1.3s, sys 4.8s, output queue size 19
progress 55% @chr10:93000001, elapsed 0.2s, est remaining 0.2s, peak mem 118MB, user 1.4s, sys 5.2s, output queue size 2
progress 60% @chr11:120000001, elapsed 0.3s, est remaining 0.2s, peak mem 118MB, user 1.7s, sys 5.5s, output queue size 3
progress 65% @chr13:12000001, elapsed 0.3s, est remaining 0.1s, peak mem 118MB, user 2.2s, sys 5.7s, output queue size 3
progress 70% @chr14:74000001, elapsed 0.3s, est remaining 0.1s, peak mem 118MB, user 2.6s, sys 5.9s, output queue size 1
progress 75% @chr16:11000001, elapsed 0.3s, est remaining 0.1s, peak mem 118MB, user 2.8s, sys 6.3s, output queue size 2
progress 80% @chr17:81000001, elapsed 0.3s, est remaining 0.1s, peak mem 118MB, user 3.1s, sys 6.6s, output queue size 3
progress 85% @chr20:21000001, elapsed 0.4s, est remaining 0.1s, peak mem 118MB, user 3.6s, sys 6.7s, output queue size 1
progress 90% @chrX:41000001, elapsed 0.4s, est remaining 0.0s, peak mem 145MB, user 3.9s, sys 7.0s, output queue size 114
progress 95% @chrY:36000001, elapsed 0.4s, est remaining 0.0s, peak mem 163MB, user 4.3s, sys 7.4s, output queue size 276
progress 100% @chr21:41000001, elapsed 0.9s, est remaining 0.0s, peak mem 187MB, user 6.2s, sys 7.8s, 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: 50813905
reads: 1001320
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.231 user 3.778 sys 5.145 real
done: 1 calls 0.009 user 0.000 sys 0.009 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.005 user 0.001 sys 0.905 real
idle: 76 calls 0.029 user 0.007 sys 44.016 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 198467584 mem 6.933 user 8.300 sys 2.451 real