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/4b/71d3acc390ab06ed23e477a80d6718/.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/4b/71d3acc390ab06ed23e477a80d6718/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/2eb6843b7950003a7c7efec56a038e/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/0d/2eb6843b7950003a7c7efec56a038e/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% @chr1:132000001, elapsed 0.0s, est remaining 0.6s, peak mem 102MB, user 0.4s, sys 0.2s, output queue size 29
progress 10% @chr2:75000001, elapsed 0.1s, est remaining 0.5s, peak mem 102MB, user 0.8s, sys 0.6s, output queue size 25
progress 15% @chr2:238000001, elapsed 0.1s, est remaining 0.5s, peak mem 102MB, user 1.2s, sys 0.9s, output queue size 15
progress 20% @chr3:164000001, elapsed 0.1s, est remaining 0.4s, peak mem 102MB, user 1.9s, sys 1.1s, output queue size 9
progress 25% @chr4:103000001, elapsed 0.1s, est remaining 0.4s, peak mem 102MB, user 2.3s, sys 1.5s, output queue size 12
progress 30% @chr5:91000001, elapsed 0.2s, est remaining 0.4s, peak mem 102MB, user 2.8s, sys 1.7s, output queue size 23
progress 35% @chr6:71000001, elapsed 0.2s, est remaining 0.3s, peak mem 102MB, user 3.3s, sys 2.2s, output queue size 19
progress 40% @chr7:57000001, elapsed 0.2s, est remaining 0.3s, peak mem 102MB, user 3.7s, sys 2.4s, output queue size 17
progress 45% @chr8:53000001, elapsed 0.2s, est remaining 0.3s, peak mem 102MB, user 4.3s, sys 2.7s, output queue size 25
progress 50% @chr9:71000001, elapsed 0.3s, est remaining 0.3s, peak mem 102MB, user 5.0s, sys 2.8s, output queue size 14
progress 55% @chr10:94000001, elapsed 0.3s, est remaining 0.2s, peak mem 102MB, user 5.7s, sys 2.9s, output queue size 11
progress 60% @chr11:116000001, elapsed 0.3s, est remaining 0.2s, peak mem 102MB, user 6.3s, sys 3.1s, output queue size 9
progress 65% @chr13:24000001, elapsed 0.3s, est remaining 0.2s, peak mem 102MB, user 7.1s, sys 3.2s, output queue size 3
progress 70% @chr14:52000001, elapsed 0.4s, est remaining 0.2s, peak mem 102MB, user 7.9s, sys 3.3s, output queue size 9
progress 75% @chr16:6000001, elapsed 0.4s, est remaining 0.1s, peak mem 102MB, user 8.6s, sys 3.3s, output queue size 11
progress 80% @chr17:80000001, elapsed 0.4s, est remaining 0.1s, peak mem 102MB, user 9.3s, sys 3.4s, output queue size 6
progress 85% @chr20:18000001, elapsed 0.5s, est remaining 0.1s, peak mem 102MB, user 10.0s, sys 3.5s, output queue size 11
progress 90% @chrX:35000001, elapsed 0.5s, est remaining 0.1s, peak mem 133MB, user 10.5s, sys 3.8s, output queue size 114
progress 95% @chrY:35000001, elapsed 0.5s, est remaining 0.0s, peak mem 153MB, user 11.0s, sys 4.3s, output queue size 276
progress 100% @chr21:41000001, elapsed 0.8s, est remaining 0.0s, peak mem 169MB, user 12.4s, sys 4.6s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
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: 50813908
reads: 1001320
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.382 user 2.356 sys 3.550 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 0.005 user 0.003 sys 0.780 real
idle: 73 calls 0.019 user 0.006 sys 37.236 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 177979392 mem 12.990 user 4.835 sys 1.916 real