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/30/ec231eceea435f16af7d424c1db960/.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/30/ec231eceea435f16af7d424c1db960/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2b/fd9523c3e5735afb5e90371124c285/HCC1395_BL.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
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2b/fd9523c3e5735afb5e90371124c285/HCC1395_BL.md.bam.bai
==> 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% @chr1:161000001, elapsed 0.0s, est remaining 0.6s, peak mem 100MB, user 0.3s, sys 0.2s, output queue size 2
progress 10% @chr2:71000001, elapsed 0.1s, est remaining 0.5s, peak mem 100MB, user 1.0s, sys 0.4s, output queue size 59
progress 15% @chr2:234000001, elapsed 0.1s, est remaining 0.5s, peak mem 100MB, user 1.8s, sys 0.5s, output queue size 40
progress 20% @chr3:146000001, elapsed 0.1s, est remaining 0.5s, peak mem 100MB, user 2.5s, sys 0.6s, output queue size 63
progress 25% @chr4:116000001, elapsed 0.1s, est remaining 0.4s, peak mem 100MB, user 3.2s, sys 0.7s, output queue size 50
progress 30% @chr5:87000001, elapsed 0.2s, est remaining 0.4s, peak mem 100MB, user 3.9s, sys 0.8s, output queue size 50
progress 35% @chr6:68000001, elapsed 0.2s, est remaining 0.4s, peak mem 100MB, user 4.8s, sys 0.9s, output queue size 38
progress 40% @chr7:47000001, elapsed 0.2s, est remaining 0.3s, peak mem 100MB, user 5.7s, sys 0.9s, output queue size 13
progress 45% @chr8:59000001, elapsed 0.3s, est remaining 0.3s, peak mem 100MB, user 6.6s, sys 0.9s, output queue size 14
progress 50% @chr9:72000001, elapsed 0.3s, est remaining 0.3s, peak mem 100MB, user 7.4s, sys 1.0s, output queue size 14
progress 55% @chr10:97000001, elapsed 0.3s, est remaining 0.3s, peak mem 100MB, user 8.1s, sys 1.1s, output queue size 14
progress 60% @chr11:125000001, elapsed 0.3s, est remaining 0.2s, peak mem 100MB, user 8.9s, sys 1.2s, output queue size 14
progress 65% @chr13:21000001, elapsed 0.4s, est remaining 0.2s, peak mem 100MB, user 9.6s, sys 1.3s, output queue size 9
progress 70% @chr14:62000001, elapsed 0.4s, est remaining 0.2s, peak mem 100MB, user 10.4s, sys 1.5s, output queue size 5
progress 75% @chr16:9000001, elapsed 0.4s, est remaining 0.1s, peak mem 100MB, user 11.2s, sys 1.5s, output queue size 14
progress 80% @chr18:2000001, elapsed 0.5s, est remaining 0.1s, peak mem 100MB, user 12.0s, sys 1.7s, output queue size 3
progress 85% @chr20:6000001, elapsed 0.5s, est remaining 0.1s, peak mem 100MB, user 12.7s, sys 1.8s, output queue size 16
progress 90% @chrX:32000001, elapsed 0.5s, est remaining 0.1s, peak mem 124MB, user 13.2s, sys 2.2s, output queue size 114
progress 95% @chrY:38000001, elapsed 0.6s, est remaining 0.0s, peak mem 141MB, user 13.5s, sys 2.8s, output queue size 276
progress 100% @chr21:41000001, elapsed 0.9s, est remaining 0.0s, peak mem 162MB, user 14.5s, sys 3.8s, 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 192
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 51395359
reads: 1001089
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.124 user 1.854 sys 3.597 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 0.008 user 0.001 sys 0.876 real
idle: 62 calls 0.023 user 0.006 sys 38.686 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 170172416 mem 15.079 user 4.079 sys 1.998 real