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/c7/f903662be38dcb53fdb910481d917b/.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-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/altera_v3_targets_postQC_hg38.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c7/f903662be38dcb53fdb910481d917b/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9b/25dc077a00a8ba972f2936f02d2b56/Sig_18_Blood.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9b/25dc077a00a8ba972f2936f02d2b56/Sig_18_Blood.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 Sig_18_Blood.md.bam --algo HsMetricAlgo --targets_list targets/altera_v3_targets_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_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:162000001, elapsed 0.0s, est remaining 0.6s, peak mem 96MB, user 0.1s, sys 0.5s, output queue size 9
progress 10% @chr2:74000001, elapsed 0.1s, est remaining 0.6s, peak mem 96MB, user 0.2s, sys 1.3s, output queue size 2
progress 15% @chr2:236000001, elapsed 0.1s, est remaining 0.5s, peak mem 96MB, user 0.3s, sys 2.2s, output queue size 19
progress 20% @chr3:154000001, elapsed 0.1s, est remaining 0.5s, peak mem 96MB, user 0.3s, sys 3.0s, output queue size 10
progress 25% @chr4:115000001, elapsed 0.1s, est remaining 0.4s, peak mem 96MB, user 0.4s, sys 3.9s, output queue size 2
progress 30% @chr5:85000001, elapsed 0.2s, est remaining 0.4s, peak mem 96MB, user 0.5s, sys 4.7s, output queue size 29
progress 35% @chr6:67000001, elapsed 0.2s, est remaining 0.4s, peak mem 96MB, user 0.5s, sys 5.4s, output queue size 8
progress 40% @chr7:56000001, elapsed 0.2s, est remaining 0.4s, peak mem 96MB, user 0.7s, sys 6.2s, output queue size 2
progress 45% @chr8:28000001, elapsed 0.3s, est remaining 0.3s, peak mem 96MB, user 0.7s, sys 7.0s, output queue size 29
progress 50% @chr9:74000001, elapsed 0.3s, est remaining 0.3s, peak mem 96MB, user 0.8s, sys 7.8s, output queue size 25
progress 55% @chr10:94000001, elapsed 0.3s, est remaining 0.3s, peak mem 96MB, user 0.9s, sys 8.6s, output queue size 1
progress 60% @chr11:122000001, elapsed 0.4s, est remaining 0.2s, peak mem 96MB, user 0.9s, sys 9.4s, output queue size 2
progress 65% @chr13:15000001, elapsed 0.4s, est remaining 0.2s, peak mem 96MB, user 1.0s, sys 10.3s, output queue size 4
progress 70% @chr14:61000001, elapsed 0.4s, est remaining 0.2s, peak mem 96MB, user 1.1s, sys 11.1s, output queue size 9
progress 75% @chr16:12000001, elapsed 0.4s, est remaining 0.1s, peak mem 96MB, user 1.2s, sys 12.0s, output queue size 2
progress 80% @chr17:77000001, elapsed 0.5s, est remaining 0.1s, peak mem 96MB, user 1.2s, sys 12.7s, output queue size 7
progress 85% @chr20:22000001, elapsed 0.5s, est remaining 0.1s, peak mem 96MB, user 1.3s, sys 13.5s, output queue size 2
progress 90% @chrX:35000001, elapsed 0.6s, est remaining 0.1s, peak mem 108MB, user 1.8s, sys 14.2s, output queue size 114
progress 95% @chrY:35000001, elapsed 0.6s, est remaining 0.0s, peak mem 126MB, user 2.1s, sys 15.1s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.1s, est remaining 0.0s, peak mem 147MB, user 3.3s, sys 16.5s, 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: 52290606
reads: 1001133
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.084 user 8.647 sys 10.005 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 0.005 user 0.003 sys 1.114 real
idle: 83 calls 0.008 user 0.015 sys 44.531 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 154296320 mem 3.482 user 17.125 sys 2.276 real