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/cf/a5000e561239558aad1281d56bf656/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ab/115b64305d060833379ba5675af81f/Sig_18_tissue.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_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/cf/a5000e561239558aad1281d56bf656/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ab/115b64305d060833379ba5675af81f/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_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_tissue_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% @chr1:158000001, elapsed 0.0s, est remaining 0.9s, peak mem 117MB, user 0.9s, sys 0.2s, output queue size 33
progress 10% @chr2:67000001, elapsed 0.1s, est remaining 0.8s, peak mem 117MB, user 2.0s, sys 0.4s, output queue size 9
progress 15% @chr2:228000001, elapsed 0.1s, est remaining 0.8s, peak mem 117MB, user 3.1s, sys 0.7s, output queue size 38
progress 20% @chr3:148000001, elapsed 0.2s, est remaining 0.7s, peak mem 117MB, user 4.2s, sys 0.9s, output queue size 9
progress 25% @chr4:112000001, elapsed 0.2s, est remaining 0.7s, peak mem 117MB, user 5.5s, sys 1.1s, output queue size 8
progress 30% @chr5:79000001, elapsed 0.3s, est remaining 0.6s, peak mem 117MB, user 6.6s, sys 1.3s, output queue size 7
progress 35% @chr6:59000001, elapsed 0.3s, est remaining 0.6s, peak mem 117MB, user 7.7s, sys 1.5s, output queue size 6
progress 40% @chr7:48000001, elapsed 0.4s, est remaining 0.5s, peak mem 117MB, user 8.8s, sys 1.6s, output queue size 9
progress 45% @chr8:50000001, elapsed 0.4s, est remaining 0.5s, peak mem 117MB, user 9.9s, sys 1.8s, output queue size 7
progress 50% @chr9:67000001, elapsed 0.4s, est remaining 0.4s, peak mem 117MB, user 10.8s, sys 2.2s, output queue size 10
progress 55% @chr10:119000001, elapsed 0.5s, est remaining 0.4s, peak mem 117MB, user 11.4s, sys 3.0s, output queue size 8
progress 60% @chr11:117000001, elapsed 0.5s, est remaining 0.3s, peak mem 117MB, user 12.1s, sys 3.5s, output queue size 6
progress 65% @chr13:37000001, elapsed 0.6s, est remaining 0.3s, peak mem 117MB, user 13.2s, sys 3.7s, output queue size 8
progress 70% @chr14:61000001, elapsed 0.6s, est remaining 0.3s, peak mem 117MB, user 14.3s, sys 3.9s, output queue size 15
progress 75% @chr16:5000001, elapsed 0.6s, est remaining 0.2s, peak mem 117MB, user 14.9s, sys 4.6s, output queue size 9
progress 80% @chr18:24000001, elapsed 0.7s, est remaining 0.2s, peak mem 117MB, user 15.6s, sys 5.1s, output queue size 33
progress 85% @chr20:19000001, elapsed 0.7s, est remaining 0.1s, peak mem 117MB, user 16.2s, sys 5.8s, output queue size 13
progress 90% @chrX:33000001, elapsed 0.8s, est remaining 0.1s, peak mem 135MB, user 16.8s, sys 6.6s, output queue size 114
progress 95% @chrY:52000001, elapsed 0.9s, est remaining 0.0s, peak mem 144MB, user 17.6s, sys 7.8s, output queue size 271
progress 100% @chr21:41000001, elapsed 1.5s, est remaining 0.0s, peak mem 153MB, user 19.4s, sys 9.4s, 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: 50047057
reads: 1001838
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.555 user 4.622 sys 7.019 real
done: 1 calls 0.007 user 0.000 sys 0.014 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.005 user 0.002 sys 1.528 real
idle: 77 calls 0.017 user 0.007 sys 48.288 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 160587776 mem 20.168 user 9.899 sys 3.117 real