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/29/62fde17d25dbb668193f9e09f0a450/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c3/5506df0a357cd11929604eb852eb91/Sig_18_tissue.md.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/foresight/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.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/29/62fde17d25dbb668193f9e09f0a450/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c3/5506df0a357cd11929604eb852eb91/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
==> 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_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.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_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:161000001, elapsed 0.0s, est remaining 0.6s, peak mem 115MB, user 0.1s, sys 0.7s, output queue size 6
progress 10% @chr2:78000001, elapsed 0.1s, est remaining 0.6s, peak mem 115MB, user 0.2s, sys 1.4s, output queue size 9
progress 15% @chr2:222000001, elapsed 0.1s, est remaining 0.5s, peak mem 115MB, user 0.4s, sys 2.1s, output queue size 13
progress 20% @chr3:166000001, elapsed 0.1s, est remaining 0.5s, peak mem 115MB, user 0.6s, sys 2.7s, output queue size 10
progress 25% @chr4:121000001, elapsed 0.1s, est remaining 0.4s, peak mem 115MB, user 0.9s, sys 3.3s, output queue size 8
progress 30% @chr5:74000001, elapsed 0.2s, est remaining 0.4s, peak mem 115MB, user 1.1s, sys 4.0s, output queue size 12
progress 35% @chr6:52000001, elapsed 0.2s, est remaining 0.4s, peak mem 115MB, user 1.3s, sys 4.6s, output queue size 14
progress 40% @chr7:64000001, elapsed 0.2s, est remaining 0.4s, peak mem 115MB, user 1.5s, sys 5.4s, output queue size 10
progress 45% @chr8:46000001, elapsed 0.3s, est remaining 0.3s, peak mem 115MB, user 1.8s, sys 5.9s, output queue size 12
progress 50% @chr9:80000001, elapsed 0.3s, est remaining 0.3s, peak mem 115MB, user 2.0s, sys 6.7s, output queue size 25
progress 55% @chr10:83000001, elapsed 0.3s, est remaining 0.3s, peak mem 115MB, user 2.1s, sys 7.5s, output queue size 12
progress 60% @chr11:124000001, elapsed 0.4s, est remaining 0.2s, peak mem 115MB, user 2.3s, sys 8.2s, output queue size 10
progress 65% @chr13:20000001, elapsed 0.4s, est remaining 0.2s, peak mem 115MB, user 2.5s, sys 8.9s, output queue size 10
progress 70% @chr14:50000001, elapsed 0.4s, est remaining 0.2s, peak mem 115MB, user 2.7s, sys 9.6s, output queue size 11
progress 75% @chr16:20000001, elapsed 0.4s, est remaining 0.1s, peak mem 115MB, user 3.0s, sys 10.2s, output queue size 12
progress 80% @chr18:5000001, elapsed 0.5s, est remaining 0.1s, peak mem 115MB, user 3.2s, sys 10.8s, output queue size 14
progress 85% @chr20:23000001, elapsed 0.5s, est remaining 0.1s, peak mem 115MB, user 3.4s, sys 11.5s, output queue size 20
progress 90% @chrX:42000001, elapsed 0.6s, est remaining 0.1s, peak mem 147MB, user 3.7s, sys 12.0s, output queue size 114
progress 95% @chrY:34000001, elapsed 0.6s, est remaining 0.0s, peak mem 165MB, user 4.3s, sys 12.7s, output queue size 271
progress 100% @chr21:41000001, elapsed 1.1s, est remaining 0.0s, peak mem 172MB, user 6.1s, sys 13.3s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: 1f8bfbff fffab20b
  extended: f1bf27eb 1b407f7e
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 31 max 192
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 50047053
reads: 1001838
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.162 user 6.892 sys 8.219 real
done: 1 calls 0.009 user 0.000 sys 0.015 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.002 user 0.001 sys 1.149 real
idle: 73 calls 0.009 user 0.014 sys 46.120 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 181190656 mem 6.698 user 13.994 sys 2.662 real