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/c3/cc3e3da8cb59c7ec8341fa424f42ff/.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/c3/cc3e3da8cb59c7ec8341fa424f42ff/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/6f30f053f806e6768e1fd6ffdb7013/Sig_18_Blood.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/6f30f053f806e6768e1fd6ffdb7013/Sig_18_Blood.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 Sig_18_Blood.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_Blood_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:157000001, elapsed 0.0s, est remaining 0.5s, peak mem 101MB, user 0.4s, sys 0.1s, output queue size 5
progress 10% @chr2:70000001, elapsed 0.1s, est remaining 0.5s, peak mem 101MB, user 0.8s, sys 0.3s, output queue size 10
progress 15% @chr2:239000001, elapsed 0.1s, est remaining 0.4s, peak mem 101MB, user 1.3s, sys 0.7s, output queue size 8
progress 20% @chr3:150000001, elapsed 0.1s, est remaining 0.4s, peak mem 101MB, user 1.9s, sys 0.8s, output queue size 10
progress 25% @chr4:105000001, elapsed 0.1s, est remaining 0.4s, peak mem 101MB, user 2.2s, sys 1.2s, output queue size 10
progress 30% @chr5:83000001, elapsed 0.1s, est remaining 0.3s, peak mem 101MB, user 2.6s, sys 1.5s, output queue size 14
progress 35% @chr6:62000001, elapsed 0.2s, est remaining 0.3s, peak mem 101MB, user 3.0s, sys 1.8s, output queue size 8
progress 40% @chr7:64000001, elapsed 0.2s, est remaining 0.3s, peak mem 101MB, user 3.7s, sys 1.9s, output queue size 3
progress 45% @chr8:49000001, elapsed 0.2s, est remaining 0.3s, peak mem 101MB, user 4.2s, sys 2.1s, output queue size 9
progress 50% @chr9:69000001, elapsed 0.2s, est remaining 0.2s, peak mem 101MB, user 4.9s, sys 2.2s, output queue size 4
progress 55% @chr10:99000001, elapsed 0.3s, est remaining 0.2s, peak mem 101MB, user 5.4s, sys 2.4s, output queue size 11
progress 60% @chr11:123000001, elapsed 0.3s, est remaining 0.2s, peak mem 101MB, user 5.8s, sys 2.7s, output queue size 7
progress 65% @chr13:13000001, elapsed 0.3s, est remaining 0.2s, peak mem 101MB, user 6.4s, sys 3.0s, output queue size 8
progress 70% @chr14:54000001, elapsed 0.3s, est remaining 0.1s, peak mem 101MB, user 6.7s, sys 3.3s, output queue size 7
progress 75% @chr16:16000001, elapsed 0.4s, est remaining 0.1s, peak mem 101MB, user 7.2s, sys 3.5s, output queue size 9
progress 80% @chr18:4000001, elapsed 0.4s, est remaining 0.1s, peak mem 101MB, user 7.7s, sys 3.7s, output queue size 7
progress 85% @chr20:25000001, elapsed 0.4s, est remaining 0.1s, peak mem 101MB, user 8.4s, sys 3.8s, output queue size 9
progress 90% @chrX:35000001, elapsed 0.5s, est remaining 0.1s, peak mem 131MB, user 9.1s, sys 4.0s, output queue size 114
progress 95% @chrY:36000001, elapsed 0.5s, est remaining 0.0s, peak mem 146MB, user 9.6s, sys 4.5s, output queue size 276
progress 100% @chr21:41000001, elapsed 0.9s, est remaining 0.0s, peak mem 161MB, user 10.8s, sys 5.3s, 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 192
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 52290609
reads: 1001133
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.477 user 2.670 sys 4.290 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 0.004 user 0.003 sys 0.946 real
idle: 75 calls 0.017 user 0.008 sys 43.091 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 169795584 mem 11.274 user 5.826 sys 2.098 real