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/4b/63b10d22e1691856ffa51f670955e1/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/85/4009f8e4e38d24d0dcfb31a137bd0e/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-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/FINAL_hotspot_list_07302025_hg38_sorted.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4b/63b10d22e1691856ffa51f670955e1/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/85/4009f8e4e38d24d0dcfb31a137bd0e/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/FINAL_hotspot_list_07302025_hg38_sorted.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_FINAL_hotspot_list_07302025_hg38_sorted.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:169000001, elapsed 0.0s, est remaining 0.5s, peak mem 99MB, user 0.1s, sys 0.3s, output queue size 13
progress 10% @chr2:70000001, elapsed 0.0s, est remaining 0.4s, peak mem 99MB, user 0.2s, sys 1.0s, output queue size 11
progress 15% @chr2:232000001, elapsed 0.1s, est remaining 0.4s, peak mem 99MB, user 0.3s, sys 1.6s, output queue size 13
progress 20% @chr3:153000001, elapsed 0.1s, est remaining 0.4s, peak mem 99MB, user 0.4s, sys 2.1s, output queue size 18
progress 25% @chr4:116000001, elapsed 0.1s, est remaining 0.3s, peak mem 99MB, user 0.5s, sys 2.7s, output queue size 3
progress 30% @chr5:87000001, elapsed 0.1s, est remaining 0.3s, peak mem 99MB, user 0.5s, sys 3.2s, output queue size 2
progress 35% @chr6:66000001, elapsed 0.2s, est remaining 0.3s, peak mem 99MB, user 0.5s, sys 3.8s, output queue size 5
progress 40% @chr7:54000001, elapsed 0.2s, est remaining 0.3s, peak mem 99MB, user 0.7s, sys 4.4s, output queue size 1
progress 45% @chr8:56000001, elapsed 0.2s, est remaining 0.2s, peak mem 102MB, user 0.8s, sys 5.0s, output queue size 1
progress 50% @chr9:72000001, elapsed 0.2s, est remaining 0.2s, peak mem 102MB, user 0.8s, sys 5.6s, output queue size 1
progress 55% @chr10:94000001, elapsed 0.2s, est remaining 0.2s, peak mem 102MB, user 1.0s, sys 6.1s, output queue size 4
progress 60% @chr11:120000001, elapsed 0.3s, est remaining 0.2s, peak mem 102MB, user 1.0s, sys 6.6s, output queue size 16
progress 65% @chr13:15000001, elapsed 0.3s, est remaining 0.2s, peak mem 102MB, user 1.1s, sys 7.1s, output queue size 4
progress 70% @chr14:62000001, elapsed 0.3s, est remaining 0.1s, peak mem 102MB, user 1.2s, sys 7.7s, output queue size 15
progress 75% @chr16:17000001, elapsed 0.3s, est remaining 0.1s, peak mem 102MB, user 1.3s, sys 8.4s, output queue size 16
progress 80% @chr18:1000001, elapsed 0.3s, est remaining 0.1s, peak mem 102MB, user 1.3s, sys 9.0s, output queue size 23
progress 85% @chr20:2000001, elapsed 0.4s, est remaining 0.1s, peak mem 102MB, user 1.4s, sys 9.6s, output queue size 20
progress 90% @chrX:38000001, elapsed 0.4s, est remaining 0.0s, peak mem 117MB, user 1.7s, sys 9.9s, output queue size 114
progress 95% @chrY:52000001, elapsed 0.5s, est remaining 0.0s, peak mem 126MB, user 2.2s, sys 10.7s, output queue size 271
progress 100% @chr21:41000001, elapsed 0.8s, est remaining 0.0s, peak mem 144MB, user 3.1s, sys 12.3s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
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 384
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 50047058
reads: 1001838
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.354 user 6.500 sys 7.619 real
done: 1 calls 0.000 user 0.000 sys 0.001 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.004 user 0.002 sys 0.794 real
idle: 79 calls 0.005 user 0.013 sys 39.422 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 151076864 mem 3.345 user 12.767 sys 1.928 real