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/1b/9bb3bb0013aace7ec9cc79dc86d4d7/.command.sh
  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/b1/80c7a3c2df156fb3104ea9d1721b43/1029_FZX-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b1/80c7a3c2df156fb3104ea9d1721b43/1029_FZX-T1-TDNA-1_A23MHWWLT4_1.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1b/9bb3bb0013aace7ec9cc79dc86d4d7/.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_FZX-T1-TDNA-1_A23MHWWLT4_1.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 1029_FZX-T1-TDNA-1_A23MHWWLT4_1_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% @chr1:188000001, elapsed 4.3s, est remaining 81.9s, peak mem 3354MB, user 90.8s, sys 2.0s, output queue size 150
progress 10% @chr2:80000001, elapsed 8.0s, est remaining 72.2s, peak mem 4511MB, user 213.2s, sys 4.8s, output queue size 166
progress 15% @chr3:18000001, elapsed 12.9s, est remaining 72.9s, peak mem 8274MB, user 354.0s, sys 7.6s, output queue size 203
progress 20% @chr3:158000001, elapsed 16.8s, est remaining 67.1s, peak mem 8515MB, user 474.3s, sys 10.6s, output queue size 283
progress 25% @chr4:124000001, elapsed 19.6s, est remaining 58.8s, peak mem 8515MB, user 565.4s, sys 11.5s, output queue size 302
progress 30% @chr5:94000001, elapsed 21.8s, est remaining 50.9s, peak mem 8560MB, user 634.7s, sys 12.1s, output queue size 464
progress 35% @chr6:79000001, elapsed 25.6s, est remaining 47.5s, peak mem 8766MB, user 732.9s, sys 13.0s, output queue size 625
progress 40% @chr6:135000001, elapsed 29.8s, est remaining 44.7s, peak mem 9126MB, user 850.2s, sys 13.9s, output queue size 786
progress 45% @chr8:74000001, elapsed 34.4s, est remaining 42.0s, peak mem 9149MB, user 1006.2s, sys 15.2s, output queue size 204
progress 50% @chr9:102000001, elapsed 38.4s, est remaining 38.4s, peak mem 9454MB, user 1111.6s, sys 16.0s, output queue size 366
progress 55% @chr10:99000001, elapsed 43.0s, est remaining 35.2s, peak mem 9812MB, user 1266.4s, sys 17.4s, output queue size 348
progress 60% @chr12:5000001, elapsed 47.3s, est remaining 31.5s, peak mem 9845MB, user 1375.1s, sys 18.3s, output queue size 510
progress 65% @chr13:39000001, elapsed 52.5s, est remaining 28.2s, peak mem 10064MB, user 1529.9s, sys 19.2s, output queue size 672
progress 70% @chr14:76000001, elapsed 55.3s, est remaining 23.7s, peak mem 10085MB, user 1612.6s, sys 19.9s, output queue size 833
progress 75% @chr16:42000001, elapsed 59.8s, est remaining 19.9s, peak mem 10123MB, user 1781.0s, sys 20.7s, output queue size 461
progress 80% @chr17:63000001, elapsed 67.6s, est remaining 16.9s, peak mem 10364MB, user 1981.9s, sys 21.9s, output queue size 623
progress 85% @chr19:52000001, elapsed 75.0s, est remaining 13.2s, peak mem 10391MB, user 2215.4s, sys 23.4s, output queue size 785
progress 90% @chrX:34000001, elapsed 79.7s, est remaining 8.9s, peak mem 10642MB, user 2376.9s, sys 24.3s, output queue size 513
progress 95% @chrY:52000001, elapsed 82.1s, est remaining 4.3s, peak mem 10642MB, user 2455.8s, sys 25.1s, output queue size 675
progress 100% @chr22:23000001, elapsed 91.6s, est remaining 0.0s, peak mem 10661MB, user 2569.2s, sys 26.0s, output queue size 3635
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: 67770633046
reads: 1275212856
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1065.600 user 22.853 sys 1085.616 real
done: 1 calls 0.266 user 0.089 sys 0.364 real
exec_no_coor: 1 calls 0.007 user 0.000 sys 0.014 real
execute: 1 calls 0.003 user 0.001 sys 91.662 real
idle: 311 calls 0.145 user 0.001 sys 282.776 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 11179827200 mem 2571.059 user 26.546 sys 93.623 real