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/77/50767246a6114ef7e2f11271d38095/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f7/7df0dd603900a4e96831ac49153a79/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/77/50767246a6114ef7e2f11271d38095/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f7/7df0dd603900a4e96831ac49153a79/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% @chr1:157000001, elapsed 0.1s, est remaining 1.1s, peak mem 99MB, user 0.1s, sys 1.3s, output queue size 6
progress 10% @chr2:74000001, elapsed 0.1s, est remaining 0.9s, peak mem 99MB, user 0.2s, sys 2.5s, output queue size 17
progress 15% @chr2:217000001, elapsed 0.1s, est remaining 0.8s, peak mem 99MB, user 0.3s, sys 3.7s, output queue size 40
progress 20% @chr3:142000001, elapsed 0.2s, est remaining 0.7s, peak mem 99MB, user 0.4s, sys 4.9s, output queue size 43
progress 25% @chr4:114000001, elapsed 0.2s, est remaining 0.7s, peak mem 99MB, user 0.6s, sys 6.0s, output queue size 16
progress 30% @chr5:78000001, elapsed 0.3s, est remaining 0.7s, peak mem 99MB, user 0.7s, sys 7.3s, output queue size 31
progress 35% @chr6:45000001, elapsed 0.3s, est remaining 0.6s, peak mem 99MB, user 0.8s, sys 9.1s, output queue size 27
progress 40% @chr7:48000001, elapsed 0.4s, est remaining 0.6s, peak mem 99MB, user 1.0s, sys 10.8s, output queue size 33
progress 45% @chr8:82000001, elapsed 0.5s, est remaining 0.6s, peak mem 99MB, user 1.1s, sys 12.7s, output queue size 11
progress 50% @chr9:62000001, elapsed 0.5s, est remaining 0.5s, peak mem 99MB, user 1.2s, sys 14.3s, output queue size 14
progress 55% @chr10:120000001, elapsed 0.6s, est remaining 0.5s, peak mem 99MB, user 1.4s, sys 16.1s, output queue size 29
progress 60% @chr11:113000001, elapsed 0.6s, est remaining 0.4s, peak mem 99MB, user 1.6s, sys 17.8s, output queue size 27
progress 65% @chr13:4000001, elapsed 0.7s, est remaining 0.4s, peak mem 99MB, user 1.7s, sys 19.6s, output queue size 14
progress 70% @chr14:53000001, elapsed 0.8s, est remaining 0.3s, peak mem 99MB, user 1.8s, sys 21.3s, output queue size 18
progress 75% @chr16:1000001, elapsed 0.8s, est remaining 0.3s, peak mem 99MB, user 1.9s, sys 23.1s, output queue size 12
progress 80% @chr17:75000001, elapsed 0.9s, est remaining 0.2s, peak mem 99MB, user 2.1s, sys 24.8s, output queue size 25
progress 85% @chr19:57000001, elapsed 0.9s, est remaining 0.2s, peak mem 99MB, user 2.2s, sys 26.5s, output queue size 24
progress 90% @chrX:26000001, elapsed 1.0s, est remaining 0.1s, peak mem 111MB, user 2.9s, sys 27.6s, output queue size 114
progress 95% @chrY:50000001, elapsed 1.1s, est remaining 0.1s, peak mem 117MB, user 3.4s, sys 29.2s, output queue size 271
progress 100% @chr21:41000001, elapsed 1.5s, est remaining 0.0s, peak mem 138MB, user 4.3s, sys 31.8s, 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 384
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 50047062
reads: 1001838
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.390 user 16.961 sys 17.566 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 0.000 user 0.004 sys 1.458 real
idle: 79 calls 0.004 user 0.011 sys 39.066 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 144769024 mem 4.458 user 32.468 sys 2.588 real