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/db/6930d69dfddf2da77bf640bc2d64b5/.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/db/6930d69dfddf2da77bf640bc2d64b5/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9d/6f66ca245d08590522a343bbd58529/HCC1395_tumor.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9d/6f66ca245d08590522a343bbd58529/HCC1395_tumor.md.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/altera_v3_targets_noncoding_postQC_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_tumor.md.bam --algo HsMetricAlgo --targets_list targets/altera_v3_targets_noncoding_postQC_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_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:153000001, elapsed 0.0s, est remaining 0.5s, peak mem 102MB, user 0.1s, sys 0.3s, output queue size 25
progress 10% @chr2:46000001, elapsed 0.0s, est remaining 0.4s, peak mem 102MB, user 0.2s, sys 0.9s, output queue size 27
progress 15% @chr3:1000001, elapsed 0.1s, est remaining 0.4s, peak mem 102MB, user 0.3s, sys 1.5s, output queue size 23
progress 20% @chr3:151000001, elapsed 0.1s, est remaining 0.4s, peak mem 102MB, user 0.5s, sys 2.0s, output queue size 26
progress 25% @chr4:109000001, elapsed 0.1s, est remaining 0.3s, peak mem 102MB, user 0.5s, sys 2.5s, output queue size 23
progress 30% @chr5:97000001, elapsed 0.1s, est remaining 0.3s, peak mem 102MB, user 0.7s, sys 3.1s, output queue size 11
progress 35% @chr6:74000001, elapsed 0.2s, est remaining 0.3s, peak mem 102MB, user 0.8s, sys 3.7s, output queue size 31
progress 40% @chr7:53000001, elapsed 0.2s, est remaining 0.3s, peak mem 102MB, user 0.9s, sys 4.3s, output queue size 25
progress 45% @chr8:65000001, elapsed 0.2s, est remaining 0.3s, peak mem 102MB, user 1.1s, sys 4.7s, output queue size 23
progress 50% @chr9:75000001, elapsed 0.2s, est remaining 0.2s, peak mem 102MB, user 1.1s, sys 5.4s, output queue size 23
progress 55% @chr10:85000001, elapsed 0.3s, est remaining 0.2s, peak mem 102MB, user 1.2s, sys 6.0s, output queue size 18
progress 60% @chr11:94000001, elapsed 0.3s, est remaining 0.2s, peak mem 102MB, user 1.3s, sys 6.5s, output queue size 34
progress 65% @chr13:24000001, elapsed 0.3s, est remaining 0.2s, peak mem 102MB, user 1.4s, sys 7.1s, output queue size 15
progress 70% @chr14:69000001, elapsed 0.3s, est remaining 0.1s, peak mem 102MB, user 1.5s, sys 7.8s, output queue size 29
progress 75% @chr16:23000001, elapsed 0.3s, est remaining 0.1s, peak mem 102MB, user 1.6s, sys 8.3s, output queue size 13
progress 80% @chr17:80000001, elapsed 0.4s, est remaining 0.1s, peak mem 102MB, user 1.7s, sys 8.8s, output queue size 26
progress 85% @chr19:53000001, elapsed 0.4s, est remaining 0.1s, peak mem 102MB, user 1.8s, sys 9.4s, output queue size 28
progress 90% @chrX:38000001, elapsed 0.4s, est remaining 0.0s, peak mem 133MB, user 2.2s, sys 9.9s, output queue size 114
progress 95% @chrY:36000001, elapsed 0.5s, est remaining 0.0s, peak mem 144MB, user 2.5s, sys 10.4s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.0s, est remaining 0.0s, peak mem 169MB, user 4.2s, sys 11.1s, output queue size 3664
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000c06f2
  features: 1f8bfbff fffab20b
  extended: f1bf07ab 1a407f7e
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) Platinum 8559C
threads: 31 max 192
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 50813904
reads: 1001320
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.550 user 5.671 sys 7.498 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 0.003 user 0.001 sys 0.988 real
idle: 85 calls 0.011 user 0.020 sys 45.055 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 178020352 mem 4.598 user 11.801 sys 2.180 real