Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta
  Downloading: s3://natera-platform-sandbox/projects/lcvs/bed-files/prenatal-exome-v1-targets-hg38.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/70/b9d3844f72a203d6d179077a980397/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ba/178d814716b662d65d51af0fd4797b/Filler-D0001089.md.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta.fai
  Downloading: s3://natera-platform-sandbox/projects/lcvs/bed-files/prenatal-exome-v1-probes-hg38.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ba/178d814716b662d65d51af0fd4797b/Filler-D0001089.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/70/b9d3844f72a203d6d179077a980397/.command.run
==> STAGING COMPLETE (8 inputs)

cmdline: /opt/conda/share/sentieon-202308.03-3/libexec/driver -t 31 -r Homo_sapiens_assembly38.fasta -i Filler-D0001089.md.bam --algo HsMetricAlgo --targets_list targets/prenatal-exome-v1-targets-hg38.bed --baits_list baits/prenatal-exome-v1-probes-hg38.bed Filler-D0001089_prenatal-exome-v1-targets-hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:178000001, elapsed 6.1s, est remaining 116.0s, peak mem 2029MB, user 154.5s, sys 5.5s, output queue size 52
progress 10% @chr2:72000001, elapsed 10.1s, est remaining 90.9s, peak mem 2348MB, user 286.3s, sys 7.2s, output queue size 94
progress 15% @chr3:18000001, elapsed 14.3s, est remaining 81.2s, peak mem 4942MB, user 404.5s, sys 8.4s, output queue size 203
progress 20% @chr3:157000001, elapsed 18.9s, est remaining 75.6s, peak mem 8067MB, user 536.3s, sys 9.8s, output queue size 364
progress 25% @chr4:120000001, elapsed 22.0s, est remaining 66.1s, peak mem 10720MB, user 640.7s, sys 11.1s, output queue size 525
progress 30% @chr5:81000001, elapsed 24.8s, est remaining 57.8s, peak mem 12458MB, user 717.1s, sys 11.9s, output queue size 687
progress 35% @chr6:63000001, elapsed 29.1s, est remaining 54.0s, peak mem 14630MB, user 828.7s, sys 13.1s, output queue size 848
progress 40% @chr7:43000001, elapsed 33.1s, est remaining 49.7s, peak mem 15296MB, user 938.0s, sys 14.3s, output queue size 1009
progress 45% @chr8:75000001, elapsed 38.1s, est remaining 46.5s, peak mem 15709MB, user 1091.2s, sys 15.9s, output queue size 1171
progress 50% @chr9:65000001, elapsed 41.5s, est remaining 41.5s, peak mem 15976MB, user 1204.7s, sys 23.8s, output queue size 914
progress 55% @chr10:112000001, elapsed 47.0s, est remaining 38.4s, peak mem 16256MB, user 1378.1s, sys 26.2s, output queue size 423
progress 60% @chr12:3000001, elapsed 53.0s, est remaining 35.3s, peak mem 16256MB, user 1557.8s, sys 28.2s, output queue size 585
progress 65% @chr13:34000001, elapsed 58.2s, est remaining 31.3s, peak mem 16256MB, user 1703.6s, sys 29.3s, output queue size 747
progress 70% @chr14:82000001, elapsed 63.4s, est remaining 27.2s, peak mem 16256MB, user 1880.0s, sys 30.4s, output queue size 908
progress 75% @chr16:42000001, elapsed 68.9s, est remaining 23.0s, peak mem 16256MB, user 2059.0s, sys 32.1s, output queue size 88
progress 80% @chr17:50000001, elapsed 79.8s, est remaining 20.0s, peak mem 16256MB, user 2352.1s, sys 34.2s, output queue size 205
progress 85% @chr20:23000001, elapsed 90.1s, est remaining 15.9s, peak mem 16256MB, user 2666.8s, sys 36.0s, output queue size 367
progress 90% @chrX:35000001, elapsed 101.7s, est remaining 11.3s, peak mem 21930MB, user 2998.2s, sys 37.8s, output queue size 529
progress 95% @chrY:53000001, elapsed 106.4s, est remaining 5.6s, peak mem 24462MB, user 3113.0s, sys 38.7s, output queue size 690
progress 100% @chr19:7000001, elapsed 191.8s, est remaining 0.0s, peak mem 37728MB, user 3482.8s, sys 61.9s, output queue size 3822
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: 64701936419
reads: 2110716668
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1340.957 user 48.545 sys 1393.218 real
done: 1 calls 0.428 user 0.387 sys 0.823 real
exec_no_coor: 1 calls 0.030 user 0.110 sys 0.157 real
execute: 1 calls 0.006 user 0.003 sys 192.227 real
idle: 2501 calls 0.239 user 0.015 sys 2465.459 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 39561089024 mem 3487.853 user 64.077 sys 195.680 real