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/6e/bf1e788b3e0c5a26b97fda2b1abb78/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6e/8467a0f89a3b28cafdce3f1ccefdce/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/6e/bf1e788b3e0c5a26b97fda2b1abb78/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6e/8467a0f89a3b28cafdce3f1ccefdce/Sig_18_tissue.md.bam
  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
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.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/xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_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_xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:157000001, elapsed 0.1s, est remaining 1.0s, peak mem 108MB, user 0.0s, sys 1.2s, output queue size 4
progress 10% @chr2:79000001, elapsed 0.1s, est remaining 0.9s, peak mem 108MB, user 0.1s, sys 2.7s, output queue size 26
progress 15% @chr2:234000001, elapsed 0.2s, est remaining 0.9s, peak mem 108MB, user 0.1s, sys 4.2s, output queue size 19
progress 20% @chr3:152000001, elapsed 0.2s, est remaining 0.8s, peak mem 108MB, user 0.2s, sys 5.7s, output queue size 2
progress 25% @chr4:115000001, elapsed 0.3s, est remaining 0.8s, peak mem 108MB, user 0.3s, sys 7.1s, output queue size 1
progress 30% @chr5:84000001, elapsed 0.3s, est remaining 0.7s, peak mem 108MB, user 0.4s, sys 8.5s, output queue size 2
progress 35% @chr6:63000001, elapsed 0.3s, est remaining 0.6s, peak mem 108MB, user 0.4s, sys 9.9s, output queue size 2
progress 40% @chr7:52000001, elapsed 0.4s, est remaining 0.6s, peak mem 108MB, user 0.5s, sys 11.3s, output queue size 14
progress 45% @chr8:61000001, elapsed 0.4s, est remaining 0.5s, peak mem 108MB, user 0.6s, sys 12.9s, output queue size 10
progress 50% @chr9:72000001, elapsed 0.5s, est remaining 0.5s, peak mem 108MB, user 0.8s, sys 14.2s, output queue size 7
progress 55% @chr10:94000001, elapsed 0.5s, est remaining 0.4s, peak mem 108MB, user 0.9s, sys 15.6s, output queue size 12
progress 60% @chr11:126000001, elapsed 0.6s, est remaining 0.4s, peak mem 108MB, user 1.0s, sys 17.0s, output queue size 13
progress 65% @chr12:132000001, elapsed 0.6s, est remaining 0.3s, peak mem 108MB, user 1.1s, sys 18.5s, output queue size 20
progress 70% @chr14:48000001, elapsed 0.7s, est remaining 0.3s, peak mem 108MB, user 1.2s, sys 19.9s, output queue size 13
progress 75% @chr16:16000001, elapsed 0.7s, est remaining 0.2s, peak mem 108MB, user 1.2s, sys 21.3s, output queue size 15
progress 80% @chr17:82000001, elapsed 0.8s, est remaining 0.2s, peak mem 108MB, user 1.3s, sys 22.8s, output queue size 12
progress 85% @chr20:1, elapsed 0.8s, est remaining 0.1s, peak mem 108MB, user 1.4s, sys 24.2s, output queue size 22
progress 90% @chrX:37000001, elapsed 0.9s, est remaining 0.1s, peak mem 123MB, user 1.9s, sys 25.0s, output queue size 114
progress 95% @chrY:20000001, elapsed 1.0s, est remaining 0.1s, peak mem 135MB, user 2.5s, sys 26.3s, output queue size 271
progress 100% @chr21:41000001, elapsed 1.3s, est remaining 0.0s, peak mem 144MB, user 3.7s, sys 28.0s, 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: 50047059
reads: 1001838
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.141 user 13.559 sys 15.842 real
done: 1 calls 0.005 user 0.000 sys 0.010 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.003 user 0.002 sys 1.321 real
idle: 74 calls 0.003 user 0.014 sys 39.014 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 151076864 mem 4.102 user 28.660 sys 2.770 real