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/f5/1aaa301a2351b36a47634add6c3b0b/.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/f5/1aaa301a2351b36a47634add6c3b0b/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/37/72cd32e74b124bc999acb6c2b18483/HCC1395_tumor.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/37/72cd32e74b124bc999acb6c2b18483/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% @chr1:165000001, elapsed 0.0s, est remaining 0.5s, peak mem 99MB, user 0.1s, sys 0.5s, output queue size 19
progress 10% @chr2:74000001, elapsed 0.1s, est remaining 0.5s, peak mem 99MB, user 0.2s, sys 1.3s, output queue size 20
progress 15% @chr2:210000001, elapsed 0.1s, est remaining 0.6s, peak mem 99MB, user 0.2s, sys 2.5s, output queue size 25
progress 20% @chr3:126000001, elapsed 0.1s, est remaining 0.6s, peak mem 99MB, user 0.4s, sys 3.6s, output queue size 27
progress 25% @chr4:113000001, elapsed 0.2s, est remaining 0.6s, peak mem 99MB, user 0.5s, sys 4.8s, output queue size 18
progress 30% @chr5:81000001, elapsed 0.2s, est remaining 0.5s, peak mem 99MB, user 0.5s, sys 6.0s, output queue size 26
progress 35% @chr6:62000001, elapsed 0.3s, est remaining 0.5s, peak mem 99MB, user 0.7s, sys 7.3s, output queue size 14
progress 40% @chr7:56000001, elapsed 0.3s, est remaining 0.5s, peak mem 99MB, user 0.7s, sys 8.4s, output queue size 26
progress 45% @chr8:52000001, elapsed 0.4s, est remaining 0.4s, peak mem 99MB, user 0.9s, sys 9.5s, output queue size 23
progress 50% @chr9:71000001, elapsed 0.4s, est remaining 0.4s, peak mem 99MB, user 0.9s, sys 10.7s, output queue size 25
progress 55% @chr10:117000001, elapsed 0.4s, est remaining 0.4s, peak mem 99MB, user 1.0s, sys 11.9s, output queue size 14
progress 60% @chr11:92000001, elapsed 0.5s, est remaining 0.3s, peak mem 99MB, user 1.1s, sys 13.1s, output queue size 31
progress 65% @chr13:12000001, elapsed 0.5s, est remaining 0.3s, peak mem 99MB, user 1.2s, sys 14.2s, output queue size 10
progress 70% @chr14:56000001, elapsed 0.6s, est remaining 0.2s, peak mem 99MB, user 1.2s, sys 15.5s, output queue size 19
progress 75% @chr15:86000001, elapsed 0.6s, est remaining 0.2s, peak mem 99MB, user 1.3s, sys 16.6s, output queue size 29
progress 80% @chr17:79000001, elapsed 0.6s, est remaining 0.2s, peak mem 99MB, user 1.5s, sys 17.7s, output queue size 19
progress 85% @chr20:18000001, elapsed 0.7s, est remaining 0.1s, peak mem 99MB, user 1.6s, sys 18.9s, output queue size 26
progress 90% @chrX:33000001, elapsed 0.7s, est remaining 0.1s, peak mem 108MB, user 2.2s, sys 19.7s, output queue size 114
progress 95% @chrY:28000001, elapsed 0.8s, est remaining 0.0s, peak mem 123MB, user 2.7s, sys 21.3s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.2s, est remaining 0.0s, peak mem 147MB, user 3.6s, sys 24.6s, 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: 50813904
reads: 1001320
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.491 user 12.907 sys 14.367 real
done: 1 calls 0.000 user 0.000 sys 0.003 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.003 user 0.002 sys 1.212 real
idle: 84 calls 0.005 user 0.009 sys 38.920 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 154214400 mem 3.763 user 25.348 sys 2.328 real