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/34/8017ea2ab09c71a6bfe3a3070011b1/.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/34/8017ea2ab09c71a6bfe3a3070011b1/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/1d91f67ba2404db05327db6c04c1ed/HCC1395_tumor.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/1d91f67ba2404db05327db6c04c1ed/HCC1395_tumor.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_tumor.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_tumor_FINAL_hotspot_list_07302025_hg38_sorted.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:155000001, elapsed 0.1s, est remaining 1.2s, peak mem 99MB, user 0.1s, sys 1.5s, output queue size 27
progress 10% @chr2:72000001, elapsed 0.1s, est remaining 1.1s, peak mem 99MB, user 0.1s, sys 3.0s, output queue size 13
progress 15% @chr2:237000001, elapsed 0.2s, est remaining 1.0s, peak mem 99MB, user 0.2s, sys 4.8s, output queue size 12
progress 20% @chr3:164000001, elapsed 0.2s, est remaining 0.9s, peak mem 99MB, user 0.3s, sys 6.4s, output queue size 27
progress 25% @chr4:139000001, elapsed 0.3s, est remaining 0.9s, peak mem 99MB, user 0.3s, sys 8.0s, output queue size 10
progress 30% @chr5:79000001, elapsed 0.3s, est remaining 0.8s, peak mem 99MB, user 0.4s, sys 9.6s, output queue size 8
progress 35% @chr6:76000001, elapsed 0.4s, est remaining 0.7s, peak mem 99MB, user 0.5s, sys 11.3s, output queue size 25
progress 40% @chr7:51000001, elapsed 0.5s, est remaining 0.7s, peak mem 99MB, user 0.5s, sys 13.0s, output queue size 22
progress 45% @chr8:43000001, elapsed 0.5s, est remaining 0.6s, peak mem 99MB, user 0.7s, sys 14.6s, output queue size 14
progress 50% @chr9:72000001, elapsed 0.6s, est remaining 0.6s, peak mem 99MB, user 0.8s, sys 16.3s, output queue size 8
progress 55% @chr10:98000001, elapsed 0.6s, est remaining 0.5s, peak mem 99MB, user 0.8s, sys 17.9s, output queue size 20
progress 60% @chr11:117000001, elapsed 0.7s, est remaining 0.5s, peak mem 99MB, user 0.9s, sys 19.5s, output queue size 19
progress 65% @chr13:9000001, elapsed 0.7s, est remaining 0.4s, peak mem 99MB, user 1.0s, sys 21.2s, output queue size 11
progress 70% @chr14:54000001, elapsed 0.8s, est remaining 0.3s, peak mem 99MB, user 1.0s, sys 22.8s, output queue size 7
progress 75% @chr15:84000001, elapsed 0.8s, est remaining 0.3s, peak mem 99MB, user 1.1s, sys 24.5s, output queue size 31
progress 80% @chr17:78000001, elapsed 0.9s, est remaining 0.2s, peak mem 99MB, user 1.2s, sys 26.2s, output queue size 15
progress 85% @chr20:16000001, elapsed 1.0s, est remaining 0.2s, peak mem 99MB, user 1.3s, sys 27.9s, output queue size 10
progress 90% @chrX:39000001, elapsed 1.0s, est remaining 0.1s, peak mem 108MB, user 1.7s, sys 29.1s, output queue size 114
progress 95% @chrY:28000001, elapsed 1.1s, est remaining 0.1s, peak mem 108MB, user 2.0s, sys 30.6s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.4s, est remaining 0.0s, peak mem 141MB, user 2.9s, sys 32.8s, 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: 50813902
reads: 1001320
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.324 user 17.337 sys 18.134 real
done: 1 calls 0.000 user 0.000 sys 0.002 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.001 user 0.001 sys 1.433 real
idle: 79 calls 0.005 user 0.025 sys 38.071 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 147935232 mem 3.072 user 33.467 sys 2.569 real