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/00/7548cc0f5d884e21b01861835869a7/1029_BCAN-T1-TDNA-1_A23MHWWLT4_1.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/02/377b5caf31f0e0355ff27cea30aa03/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/00/7548cc0f5d884e21b01861835869a7/1029_BCAN-T1-TDNA-1_A23MHWWLT4_1.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/02/377b5caf31f0e0355ff27cea30aa03/.command.run
  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 1029_BCAN-T1-TDNA-1_A23MHWWLT4_1.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 1029_BCAN-T1-TDNA-1_A23MHWWLT4_1_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% @chr1:181000001, elapsed 2.2s, est remaining 41.7s, peak mem 1043MB, user 54.9s, sys 1.1s, output queue size 42
progress 10% @chr2:72000001, elapsed 3.9s, est remaining 34.7s, peak mem 1475MB, user 110.1s, sys 1.7s, output queue size 70
progress 15% @chr2:230000001, elapsed 5.8s, est remaining 32.7s, peak mem 1789MB, user 167.6s, sys 2.5s, output queue size 57
progress 20% @chr3:168000001, elapsed 7.6s, est remaining 30.3s, peak mem 1827MB, user 221.2s, sys 2.9s, output queue size 141
progress 25% @chr4:130000001, elapsed 9.1s, est remaining 27.4s, peak mem 1861MB, user 275.2s, sys 3.3s, output queue size 16
progress 30% @chr5:107000001, elapsed 10.4s, est remaining 24.3s, peak mem 1861MB, user 314.2s, sys 3.7s, output queue size 19
progress 35% @chr6:76000001, elapsed 12.2s, est remaining 22.7s, peak mem 2065MB, user 363.5s, sys 4.1s, output queue size 70
progress 40% @chr7:71000001, elapsed 14.0s, est remaining 21.0s, peak mem 2213MB, user 418.5s, sys 4.7s, output queue size 195
progress 45% @chr7:13000001, elapsed 15.9s, est remaining 19.5s, peak mem 2213MB, user 478.2s, sys 5.2s, output queue size 204
progress 50% @chr9:87000001, elapsed 17.5s, est remaining 17.5s, peak mem 2249MB, user 521.0s, sys 5.4s, output queue size 187
progress 55% @chr10:96000001, elapsed 19.4s, est remaining 15.9s, peak mem 2312MB, user 580.1s, sys 5.9s, output queue size 348
progress 60% @chr11:94000001, elapsed 21.3s, est remaining 14.2s, peak mem 2378MB, user 645.4s, sys 6.5s, output queue size 59
progress 65% @chr13:31000001, elapsed 23.3s, est remaining 12.5s, peak mem 2378MB, user 701.6s, sys 6.9s, output queue size 138
progress 70% @chr14:83000001, elapsed 24.6s, est remaining 10.6s, peak mem 2397MB, user 746.2s, sys 7.2s, output queue size 299
progress 75% @chr16:37000001, elapsed 26.6s, est remaining 8.9s, peak mem 2494MB, user 795.6s, sys 7.7s, output queue size 461
progress 80% @chr17:63000001, elapsed 29.3s, est remaining 7.3s, peak mem 2562MB, user 880.9s, sys 8.3s, output queue size 86
progress 85% @chr19:4000001, elapsed 31.9s, est remaining 5.6s, peak mem 2722MB, user 969.5s, sys 8.9s, output queue size 77
progress 90% @chrX:23000001, elapsed 33.7s, est remaining 3.7s, peak mem 2722MB, user 1023.2s, sys 9.2s, output queue size 78
progress 95% @chrY:54000001, elapsed 34.9s, est remaining 1.8s, peak mem 2722MB, user 1063.0s, sys 9.5s, output queue size 211
progress 100% @chrX:154000001, elapsed 35.7s, est remaining 0.0s, peak mem 2722MB, user 1081.9s, sys 9.7s, output queue size 3453
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: 34425376535
reads: 539909111
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 531.846 user 8.096 sys 539.820 real
done: 1 calls 0.319 user 0.039 sys 0.365 real
exec_no_coor: 1 calls 0.009 user 0.000 sys 0.013 real
execute: 1 calls 0.004 user 0.003 sys 35.716 real
idle: 65 calls 0.106 user 0.000 sys 44.981 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 2854240256 mem 1083.951 user 10.189 sys 37.314 real