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/11/39ce2697dd69c5adf1ef4e160834ae/.command.sh
  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_footprint.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/11/39ce2697dd69c5adf1ef4e160834ae/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/09ab92fd6d06dd30552109cbffc247/Sig_18_Blood.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/09ab92fd6d06dd30552109cbffc247/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/xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.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_xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:168000001, elapsed 0.0s, est remaining 0.5s, peak mem 117MB, user 0.1s, sys 0.4s, output queue size 10
progress 10% @chr2:78000001, elapsed 0.1s, est remaining 0.5s, peak mem 117MB, user 0.2s, sys 0.9s, output queue size 16
progress 15% @chr3:17000001, elapsed 0.1s, est remaining 0.4s, peak mem 117MB, user 0.4s, sys 1.6s, output queue size 21
progress 20% @chr3:154000001, elapsed 0.1s, est remaining 0.5s, peak mem 117MB, user 0.5s, sys 2.9s, output queue size 32
progress 25% @chr4:112000001, elapsed 0.2s, est remaining 0.5s, peak mem 117MB, user 0.6s, sys 4.1s, output queue size 25
progress 30% @chr5:82000001, elapsed 0.2s, est remaining 0.5s, peak mem 117MB, user 0.8s, sys 5.4s, output queue size 46
progress 35% @chr6:93000001, elapsed 0.3s, est remaining 0.5s, peak mem 117MB, user 0.8s, sys 6.8s, output queue size 10
progress 40% @chr7:79000001, elapsed 0.3s, est remaining 0.5s, peak mem 117MB, user 0.9s, sys 8.2s, output queue size 11
progress 45% @chr8:50000001, elapsed 0.4s, est remaining 0.4s, peak mem 117MB, user 1.0s, sys 9.7s, output queue size 7
progress 50% @chr9:58000001, elapsed 0.4s, est remaining 0.4s, peak mem 117MB, user 1.0s, sys 11.1s, output queue size 15
progress 55% @chr10:88000001, elapsed 0.5s, est remaining 0.4s, peak mem 117MB, user 1.1s, sys 12.7s, output queue size 9
progress 60% @chr11:117000001, elapsed 0.5s, est remaining 0.3s, peak mem 117MB, user 1.2s, sys 14.2s, output queue size 14
progress 65% @chr13:42000001, elapsed 0.6s, est remaining 0.3s, peak mem 117MB, user 1.3s, sys 15.6s, output queue size 10
progress 70% @chr14:55000001, elapsed 0.6s, est remaining 0.3s, peak mem 117MB, user 1.5s, sys 17.0s, output queue size 20
progress 75% @chr16:42000001, elapsed 0.7s, est remaining 0.2s, peak mem 117MB, user 1.5s, sys 18.4s, output queue size 6
progress 80% @chr17:78000001, elapsed 0.7s, est remaining 0.2s, peak mem 117MB, user 1.7s, sys 19.9s, output queue size 6
progress 85% @chr20:45000001, elapsed 0.8s, est remaining 0.1s, peak mem 117MB, user 1.7s, sys 21.3s, output queue size 7
progress 90% @chrX:40000001, elapsed 0.8s, est remaining 0.1s, peak mem 135MB, user 2.1s, sys 21.9s, output queue size 114
progress 95% @chrY:38000001, elapsed 0.8s, est remaining 0.0s, peak mem 150MB, user 2.5s, sys 22.3s, output queue size 276
progress 100% @chr21:41000001, elapsed 1.5s, est remaining 0.0s, peak mem 165MB, user 4.5s, sys 23.1s, 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: 52290604
reads: 1001133
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.443 user 11.732 sys 13.209 real
done: 1 calls 0.009 user 0.000 sys 0.014 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.010 user 0.000 sys 1.471 real
idle: 77 calls 0.008 user 0.023 sys 48.102 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 173113344 mem 4.889 user 23.888 sys 3.047 real