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/96/afdfffb4bbbbe13ceeb9a3bde743e3/.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-rnd-pltf-dev-nextflow-scratch-01/work/96/afdfffb4bbbbe13ceeb9a3bde743e3/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/37/72cd32e74b124bc999acb6c2b18483/HCC1395_tumor.md.bam
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/foresight/foresight_clarity_targets_hg38.bed
  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/foresight_clarity_targets_hg38.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_foresight_clarity_targets_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:157000001, elapsed 0.0s, est remaining 0.8s, peak mem 96MB, user 0.1s, sys 0.8s, output queue size 18
progress 10% @chr2:60000001, elapsed 0.1s, est remaining 0.8s, peak mem 96MB, user 0.3s, sys 2.2s, output queue size 19
progress 15% @chr3:15000001, elapsed 0.2s, est remaining 0.9s, peak mem 96MB, user 0.4s, sys 4.0s, output queue size 40
progress 20% @chr3:124000001, elapsed 0.2s, est remaining 0.9s, peak mem 96MB, user 0.5s, sys 5.7s, output queue size 29
progress 25% @chr4:83000001, elapsed 0.3s, est remaining 0.9s, peak mem 96MB, user 0.6s, sys 7.7s, output queue size 32
progress 30% @chr5:68000001, elapsed 0.3s, est remaining 0.8s, peak mem 96MB, user 0.6s, sys 9.7s, output queue size 30
progress 35% @chr6:43000001, elapsed 0.4s, est remaining 0.8s, peak mem 96MB, user 0.7s, sys 11.5s, output queue size 28
progress 40% @chr7:24000001, elapsed 0.5s, est remaining 0.7s, peak mem 96MB, user 0.7s, sys 13.5s, output queue size 34
progress 45% @chr8:80000001, elapsed 0.5s, est remaining 0.7s, peak mem 96MB, user 0.8s, sys 15.2s, output queue size 41
progress 50% @chr9:99000001, elapsed 0.6s, est remaining 0.6s, peak mem 96MB, user 0.9s, sys 17.1s, output queue size 41
progress 55% @chr10:119000001, elapsed 0.7s, est remaining 0.5s, peak mem 96MB, user 1.0s, sys 18.8s, output queue size 49
progress 60% @chr12:7000001, elapsed 0.7s, est remaining 0.5s, peak mem 96MB, user 1.1s, sys 20.6s, output queue size 52
progress 65% @chr13:41000001, elapsed 0.8s, est remaining 0.4s, peak mem 96MB, user 1.2s, sys 22.4s, output queue size 50
progress 70% @chr14:84000001, elapsed 0.8s, est remaining 0.4s, peak mem 96MB, user 1.3s, sys 24.2s, output queue size 47
progress 75% @chr16:36000001, elapsed 0.9s, est remaining 0.3s, peak mem 96MB, user 1.4s, sys 26.0s, output queue size 46
progress 80% @chr18:22000001, elapsed 1.0s, est remaining 0.2s, peak mem 96MB, user 1.4s, sys 27.8s, output queue size 55
progress 85% @chr19:21000001, elapsed 1.0s, est remaining 0.2s, peak mem 96MB, user 1.6s, sys 29.3s, output queue size 63
progress 90% @chrX:23000001, elapsed 1.1s, est remaining 0.1s, peak mem 102MB, user 2.1s, sys 31.0s, output queue size 114
progress 95% @chrY:46000001, elapsed 1.2s, est remaining 0.1s, peak mem 108MB, user 2.4s, sys 32.5s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.5s, est remaining 0.0s, peak mem 141MB, user 3.6s, sys 35.4s, 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 1.328 user 18.327 sys 20.172 real
done: 1 calls 0.000 user 0.002 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 1.543 real
idle: 83 calls 0.009 user 0.023 sys 38.301 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 148004864 mem 3.809 user 35.945 sys 2.691 real