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/0f/8534396910675940252ca9934d82b4/.command.sh
  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/71/81816b54ab7484624d9fee8b6881d3/HCC1395_BL.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0f/8534396910675940252ca9934d82b4/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/81816b54ab7484624d9fee8b6881d3/HCC1395_BL.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_BL.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 HCC1395_BL_FINAL_hotspot_list_07302025_hg38_sorted.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:158000001, elapsed 0.0s, est remaining 0.6s, peak mem 99MB, user 0.3s, sys 0.2s, output queue size 6
progress 10% @chr2:73000001, elapsed 0.1s, est remaining 0.5s, peak mem 99MB, user 0.9s, sys 0.5s, output queue size 13
progress 15% @chr2:235000001, elapsed 0.1s, est remaining 0.5s, peak mem 99MB, user 1.3s, sys 0.9s, output queue size 15
progress 20% @chr3:163000001, elapsed 0.1s, est remaining 0.4s, peak mem 99MB, user 1.5s, sys 1.4s, output queue size 3
progress 25% @chr4:107000001, elapsed 0.1s, est remaining 0.4s, peak mem 99MB, user 2.0s, sys 1.7s, output queue size 11
progress 30% @chr5:91000001, elapsed 0.2s, est remaining 0.4s, peak mem 99MB, user 2.5s, sys 1.9s, output queue size 8
progress 35% @chr6:65000001, elapsed 0.2s, est remaining 0.3s, peak mem 99MB, user 3.1s, sys 2.2s, output queue size 11
progress 40% @chr7:59000001, elapsed 0.2s, est remaining 0.3s, peak mem 99MB, user 3.5s, sys 2.5s, output queue size 1
progress 45% @chr8:56000001, elapsed 0.2s, est remaining 0.3s, peak mem 99MB, user 4.0s, sys 2.8s, output queue size 6
progress 50% @chr9:74000001, elapsed 0.3s, est remaining 0.3s, peak mem 99MB, user 4.5s, sys 2.9s, output queue size 12
progress 55% @chr10:98000001, elapsed 0.3s, est remaining 0.2s, peak mem 99MB, user 4.8s, sys 3.6s, output queue size 1
progress 60% @chr11:121000001, elapsed 0.3s, est remaining 0.2s, peak mem 99MB, user 5.1s, sys 4.0s, output queue size 11
progress 65% @chr13:17000001, elapsed 0.3s, est remaining 0.2s, peak mem 99MB, user 5.5s, sys 4.4s, output queue size 9
progress 70% @chr14:46000001, elapsed 0.4s, est remaining 0.2s, peak mem 99MB, user 5.7s, sys 4.9s, output queue size 15
progress 75% @chr16:9000001, elapsed 0.4s, est remaining 0.1s, peak mem 99MB, user 5.9s, sys 5.5s, output queue size 11
progress 80% @chr17:77000001, elapsed 0.4s, est remaining 0.1s, peak mem 99MB, user 6.1s, sys 6.1s, output queue size 7
progress 85% @chr20:17000001, elapsed 0.4s, est remaining 0.1s, peak mem 99MB, user 6.4s, sys 6.4s, output queue size 5
progress 90% @chrX:34000001, elapsed 0.5s, est remaining 0.1s, peak mem 114MB, user 6.9s, sys 7.0s, output queue size 114
progress 95% @chr21:42000001, elapsed 0.5s, est remaining 0.0s, peak mem 135MB, user 7.3s, sys 7.6s, output queue size 276
progress 100% @chr21:41000001, elapsed 0.8s, est remaining 0.0s, peak mem 150MB, user 8.4s, sys 8.5s, 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: 51395350
reads: 1001089
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.367 user 4.273 sys 6.207 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 0.002 user 0.001 sys 0.813 real
idle: 81 calls 0.018 user 0.010 sys 38.354 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 157372416 mem 8.710 user 9.010 sys 1.941 real