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/80/aed18c3375a40803b9e49def741562/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/dd/1522a57805e7cad4bff5ff92b93eac/Sig_18_tissue.md.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/foresight/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.bed
  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/80/aed18c3375a40803b9e49def741562/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/dd/1522a57805e7cad4bff5ff92b93eac/Sig_18_tissue.md.bam
  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/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.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_xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:165000001, elapsed 0.0s, est remaining 0.7s, peak mem 111MB, user 0.2s, sys 0.6s, output queue size 7
progress 10% @chr2:77000001, elapsed 0.1s, est remaining 0.6s, peak mem 111MB, user 0.5s, sys 1.3s, output queue size 15
progress 15% @chr2:236000001, elapsed 0.1s, est remaining 0.6s, peak mem 111MB, user 0.6s, sys 2.1s, output queue size 18
progress 20% @chr3:156000001, elapsed 0.1s, est remaining 0.5s, peak mem 111MB, user 0.8s, sys 3.0s, output queue size 13
progress 25% @chr4:105000001, elapsed 0.2s, est remaining 0.5s, peak mem 111MB, user 1.1s, sys 3.7s, output queue size 18
progress 30% @chr5:80000001, elapsed 0.2s, est remaining 0.5s, peak mem 111MB, user 1.3s, sys 4.6s, output queue size 11
progress 35% @chr6:66000001, elapsed 0.2s, est remaining 0.4s, peak mem 111MB, user 1.4s, sys 5.3s, output queue size 4
progress 40% @chr7:41000001, elapsed 0.3s, est remaining 0.4s, peak mem 111MB, user 1.5s, sys 6.1s, output queue size 14
progress 45% @chr8:59000001, elapsed 0.3s, est remaining 0.4s, peak mem 111MB, user 1.8s, sys 6.9s, output queue size 14
progress 50% @chr9:76000001, elapsed 0.3s, est remaining 0.3s, peak mem 111MB, user 2.0s, sys 7.7s, output queue size 6
progress 55% @chr10:99000001, elapsed 0.4s, est remaining 0.3s, peak mem 111MB, user 2.1s, sys 8.5s, output queue size 16
progress 60% @chr11:117000001, elapsed 0.4s, est remaining 0.3s, peak mem 111MB, user 2.3s, sys 9.2s, output queue size 19
progress 65% @chr13:15000001, elapsed 0.4s, est remaining 0.2s, peak mem 111MB, user 2.6s, sys 9.8s, output queue size 20
progress 70% @chr14:54000001, elapsed 0.5s, est remaining 0.2s, peak mem 111MB, user 2.7s, sys 11.2s, output queue size 15
progress 75% @chr16:5000001, elapsed 0.5s, est remaining 0.2s, peak mem 111MB, user 2.9s, sys 12.7s, output queue size 8
progress 80% @chr18:1, elapsed 0.6s, est remaining 0.1s, peak mem 111MB, user 3.2s, sys 14.0s, output queue size 10
progress 85% @chr20:51000001, elapsed 0.6s, est remaining 0.1s, peak mem 111MB, user 3.5s, sys 15.3s, output queue size 8
progress 90% @chrX:39000001, elapsed 0.7s, est remaining 0.1s, peak mem 135MB, user 3.8s, sys 16.1s, output queue size 114
progress 95% @chrY:51000001, elapsed 0.7s, est remaining 0.0s, peak mem 147MB, user 4.7s, sys 17.1s, output queue size 271
progress 100% @chr21:41000001, elapsed 1.3s, est remaining 0.0s, peak mem 159MB, user 6.1s, sys 18.7s, 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 384
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 50047062
reads: 1001838
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.530 user 9.540 sys 10.808 real
done: 1 calls 0.003 user 0.007 sys 0.011 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.007 user 0.003 sys 1.362 real
idle: 82 calls 0.012 user 0.025 sys 46.943 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 166813696 mem 6.619 user 19.489 sys 2.844 real