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/a0/0ac310a2efa0ab4a76db0d64c73a0d/.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/a0/0ac310a2efa0ab4a76db0d64c73a0d/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/af/59602beff2582115ca8773cdc501b8/1029_BCKB-N1-BDNA-1_B23KFG5LT4_1.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/af/59602beff2582115ca8773cdc501b8/1029_BCKB-N1-BDNA-1_B23KFG5LT4_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.bed
==> STAGING COMPLETE (8 inputs)

cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -r Homo_sapiens_assembly38.fasta -i 1029_BCKB-N1-BDNA-1_B23KFG5LT4_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_BCKB-N1-BDNA-1_B23KFG5LT4_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% @chr1:175000001, elapsed 1.7s, est remaining 32.0s, peak mem 1162MB, user 37.8s, sys 1.0s, output queue size 150
progress 10% @chr2:91000001, elapsed 3.1s, est remaining 27.7s, peak mem 1617MB, user 80.4s, sys 1.6s, output queue size 166
progress 15% @chr2:214000001, elapsed 4.6s, est remaining 26.0s, peak mem 2398MB, user 127.2s, sys 2.4s, output queue size 203
progress 20% @chr3:178000001, elapsed 5.9s, est remaining 23.5s, peak mem 2412MB, user 168.8s, sys 3.6s, output queue size 141
progress 25% @chr4:98000001, elapsed 7.0s, est remaining 21.0s, peak mem 2434MB, user 201.9s, sys 4.3s, output queue size 302
progress 30% @chr5:106000001, elapsed 7.8s, est remaining 18.2s, peak mem 2474MB, user 226.0s, sys 4.7s, output queue size 464
progress 35% @chr6:91000001, elapsed 9.0s, est remaining 16.8s, peak mem 2526MB, user 258.8s, sys 5.1s, output queue size 625
progress 40% @chr7:66000001, elapsed 10.4s, est remaining 15.6s, peak mem 2624MB, user 297.8s, sys 5.6s, output queue size 786
progress 45% @chr7:100000001, elapsed 12.0s, est remaining 14.7s, peak mem 2658MB, user 344.6s, sys 6.1s, output queue size 948
progress 50% @chr9:37000001, elapsed 13.2s, est remaining 13.2s, peak mem 2736MB, user 381.8s, sys 6.4s, output queue size 366
progress 55% @chr10:120000001, elapsed 14.8s, est remaining 12.1s, peak mem 2750MB, user 427.9s, sys 6.7s, output queue size 527
progress 60% @chr11:69000001, elapsed 16.4s, est remaining 10.9s, peak mem 2756MB, user 482.2s, sys 7.2s, output queue size 510
progress 65% @chr13:36000001, elapsed 18.0s, est remaining 9.7s, peak mem 2760MB, user 524.3s, sys 7.7s, output queue size 672
progress 70% @chr14:71000001, elapsed 18.9s, est remaining 8.1s, peak mem 2766MB, user 551.0s, sys 8.1s, output queue size 833
progress 75% @chr16:41000001, elapsed 20.7s, est remaining 6.9s, peak mem 2807MB, user 605.0s, sys 8.7s, output queue size 995
progress 80% @chr18:28000001, elapsed 23.6s, est remaining 5.9s, peak mem 2855MB, user 687.8s, sys 9.3s, output queue size 623
progress 85% @chr19:42000001, elapsed 26.3s, est remaining 4.6s, peak mem 2855MB, user 770.7s, sys 9.8s, output queue size 785
progress 90% @chrX:42000001, elapsed 27.7s, est remaining 3.1s, peak mem 2935MB, user 827.5s, sys 10.4s, output queue size 513
progress 95% @chrY:52000001, elapsed 28.6s, est remaining 1.5s, peak mem 2953MB, user 849.7s, sys 10.5s, output queue size 675
progress 100% @chr22:23000001, elapsed 31.9s, est remaining 0.0s, peak mem 2965MB, user 892.9s, sys 10.9s, output queue size 3635
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.83
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: 17324651577
reads: 385958749
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 303.895 user 7.780 sys 314.175 real
done: 1 calls 0.371 user 0.000 sys 0.378 real
exec_no_coor: 1 calls 0.001 user 0.000 sys 0.003 real
execute: 1 calls 0.004 user 0.002 sys 31.904 real
idle: 158 calls 0.139 user 0.001 sys 126.476 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 3111424000 mem 894.996 user 11.248 sys 33.887 real