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/ef/41f6ac3238019dd7c5103ab4e635bb/.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/0c/c2b74978999e79d68b10df4e48b8f5/HCC1395_BL.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ef/41f6ac3238019dd7c5103ab4e635bb/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0c/c2b74978999e79d68b10df4e48b8f5/HCC1395_BL.md.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/foresight/foresight_clarity_targets_hg38.bed
  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/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_BL_foresight_clarity_targets_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:185000001, elapsed 0.0s, est remaining 0.7s, peak mem 102MB, user 0.3s, sys 0.4s, output queue size 25
progress 10% @chr2:79000001, elapsed 0.1s, est remaining 0.7s, peak mem 102MB, user 0.8s, sys 1.0s, output queue size 26
progress 15% @chr2:228000001, elapsed 0.1s, est remaining 0.7s, peak mem 102MB, user 1.2s, sys 1.9s, output queue size 26
progress 20% @chr3:177000001, elapsed 0.2s, est remaining 0.6s, peak mem 102MB, user 1.5s, sys 2.7s, output queue size 37
progress 25% @chr4:140000001, elapsed 0.2s, est remaining 0.6s, peak mem 102MB, user 1.9s, sys 3.6s, output queue size 28
progress 30% @chr5:109000001, elapsed 0.2s, est remaining 0.6s, peak mem 102MB, user 2.2s, sys 4.7s, output queue size 35
progress 35% @chr6:67000001, elapsed 0.3s, est remaining 0.5s, peak mem 102MB, user 2.4s, sys 5.6s, output queue size 28
progress 40% @chr7:51000001, elapsed 0.3s, est remaining 0.5s, peak mem 102MB, user 2.6s, sys 6.8s, output queue size 30
progress 45% @chr8:62000001, elapsed 0.4s, est remaining 0.4s, peak mem 102MB, user 2.8s, sys 7.8s, output queue size 40
progress 50% @chr9:94000001, elapsed 0.4s, est remaining 0.4s, peak mem 102MB, user 3.2s, sys 8.7s, output queue size 25
progress 55% @chr10:102000001, elapsed 0.4s, est remaining 0.4s, peak mem 102MB, user 3.4s, sys 9.7s, output queue size 32
progress 60% @chr11:113000001, elapsed 0.5s, est remaining 0.3s, peak mem 102MB, user 3.8s, sys 10.6s, output queue size 35
progress 65% @chr12:123000001, elapsed 0.5s, est remaining 0.3s, peak mem 102MB, user 4.2s, sys 11.6s, output queue size 41
progress 70% @chr14:63000001, elapsed 0.6s, est remaining 0.2s, peak mem 102MB, user 4.6s, sys 12.5s, output queue size 45
progress 75% @chr16:18000001, elapsed 0.6s, est remaining 0.2s, peak mem 102MB, user 4.9s, sys 13.5s, output queue size 45
progress 80% @chr18:2000001, elapsed 0.7s, est remaining 0.2s, peak mem 102MB, user 5.2s, sys 14.3s, output queue size 46
progress 85% @chr20:24000001, elapsed 0.7s, est remaining 0.1s, peak mem 102MB, user 5.5s, sys 15.2s, output queue size 49
progress 90% @chrX:41000001, elapsed 0.7s, est remaining 0.1s, peak mem 120MB, user 6.0s, sys 15.8s, output queue size 114
progress 95% @chrY:41000001, elapsed 0.8s, est remaining 0.0s, peak mem 135MB, user 6.3s, sys 16.5s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.2s, est remaining 0.0s, peak mem 153MB, user 7.8s, sys 17.6s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000a06d1
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) 6975P-C
threads: 31 max 384
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 51395349
reads: 1001089
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.450 user 8.755 sys 11.019 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 0.000 sys 1.204 real
idle: 75 calls 0.022 user 0.023 sys 41.762 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 160571392 mem 8.077 user 18.123 sys 2.338 real