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/a6/e8d103584e7c0062cdfc4c13c65055/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1c/e6fd1550c035ef242c1bb22caf4565/Sig_18_tissue.md.bam.bai
  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/a6/e8d103584e7c0062cdfc4c13c65055/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1c/e6fd1550c035ef242c1bb22caf4565/Sig_18_tissue.md.bam
  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 Sig_18_tissue.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 Sig_18_tissue_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:136000001, elapsed 0.1s, est remaining 1.4s, peak mem 102MB, user 0.1s, sys 1.7s, output queue size 25
progress 10% @chr2:53000001, elapsed 0.1s, est remaining 1.3s, peak mem 102MB, user 0.3s, sys 3.7s, output queue size 20
progress 15% @chr2:220000001, elapsed 0.2s, est remaining 1.2s, peak mem 102MB, user 0.3s, sys 5.8s, output queue size 15
progress 20% @chr3:146000001, elapsed 0.3s, est remaining 1.1s, peak mem 102MB, user 0.4s, sys 7.8s, output queue size 10
progress 25% @chr4:108000001, elapsed 0.4s, est remaining 1.1s, peak mem 102MB, user 0.6s, sys 9.9s, output queue size 14
progress 30% @chr5:69000001, elapsed 0.4s, est remaining 1.0s, peak mem 102MB, user 0.6s, sys 11.8s, output queue size 17
progress 35% @chr6:45000001, elapsed 0.5s, est remaining 0.9s, peak mem 102MB, user 0.7s, sys 13.7s, output queue size 20
progress 40% @chr7:70000001, elapsed 0.5s, est remaining 0.8s, peak mem 102MB, user 0.8s, sys 15.6s, output queue size 10
progress 45% @chr8:70000001, elapsed 0.6s, est remaining 0.7s, peak mem 102MB, user 0.8s, sys 17.5s, output queue size 17
progress 50% @chr9:64000001, elapsed 0.7s, est remaining 0.7s, peak mem 102MB, user 1.0s, sys 19.3s, output queue size 21
progress 55% @chr10:93000001, elapsed 0.7s, est remaining 0.6s, peak mem 102MB, user 1.0s, sys 21.1s, output queue size 25
progress 60% @chr11:116000001, elapsed 0.8s, est remaining 0.5s, peak mem 102MB, user 1.2s, sys 23.0s, output queue size 16
progress 65% @chr13:28000001, elapsed 0.9s, est remaining 0.5s, peak mem 102MB, user 1.3s, sys 24.9s, output queue size 13
progress 70% @chr14:58000001, elapsed 0.9s, est remaining 0.4s, peak mem 102MB, user 1.3s, sys 26.7s, output queue size 17
progress 75% @chr15:96000001, elapsed 1.0s, est remaining 0.3s, peak mem 102MB, user 1.5s, sys 28.5s, output queue size 19
progress 80% @chr17:72000001, elapsed 1.1s, est remaining 0.3s, peak mem 102MB, user 1.6s, sys 30.4s, output queue size 12
progress 85% @chr20:9000001, elapsed 1.1s, est remaining 0.2s, peak mem 102MB, user 1.7s, sys 32.3s, output queue size 16
progress 90% @chr21:29000001, elapsed 1.2s, est remaining 0.1s, peak mem 108MB, user 2.2s, sys 33.7s, output queue size 114
progress 95% @chrY:23000001, elapsed 1.3s, est remaining 0.1s, peak mem 120MB, user 2.6s, sys 35.3s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.8s, est remaining 0.0s, peak mem 135MB, user 3.7s, sys 38.1s, 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: 50047058
reads: 1001838
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.282 user 19.379 sys 20.879 real
done: 1 calls 0.000 user 0.000 sys 0.003 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.003 user 0.001 sys 1.811 real
idle: 82 calls 0.006 user 0.015 sys 43.683 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 141647872 mem 3.914 user 38.715 sys 2.976 real