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/c9/d1f787d25e3b982691c673bee34f2e/Filler-D0000789.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c9/d1f787d25e3b982691c673bee34f2e/Filler-D0000789.md.bam.bai
  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/b3/b236ac52311a26f954dd252a5f3123/.command.sh
  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/b3/b236ac52311a26f954dd252a5f3123/.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-D0000789.md.bam --algo HsMetricAlgo --targets_list targets/prenatal-exome-v1-targets-hg38.bed --baits_list baits/prenatal-exome-v1-probes-hg38.bed Filler-D0000789_prenatal-exome-v1-targets-hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:175000001, elapsed 6.4s, est remaining 121.5s, peak mem 2013MB, user 153.1s, sys 7.3s, output queue size 160
progress 10% @chr2:68000001, elapsed 10.4s, est remaining 93.4s, peak mem 2270MB, user 292.1s, sys 9.7s, output queue size 94
progress 15% @chr3:18000001, elapsed 14.6s, est remaining 82.7s, peak mem 4501MB, user 408.8s, sys 11.6s, output queue size 203
progress 20% @chr3:142000001, elapsed 19.4s, est remaining 77.4s, peak mem 7835MB, user 542.5s, sys 13.4s, output queue size 364
progress 25% @chr4:120000001, elapsed 22.6s, est remaining 67.8s, peak mem 10805MB, user 654.1s, sys 15.8s, output queue size 525
progress 30% @chr5:83000001, elapsed 25.3s, est remaining 59.1s, peak mem 12375MB, user 729.2s, sys 17.0s, output queue size 687
progress 35% @chr6:91000001, elapsed 29.7s, est remaining 55.2s, peak mem 15553MB, user 840.9s, sys 18.4s, output queue size 848
progress 40% @chr7:50000001, elapsed 33.8s, est remaining 50.7s, peak mem 18007MB, user 949.9s, sys 19.8s, output queue size 1009
progress 45% @chr8:60000001, elapsed 38.9s, est remaining 47.5s, peak mem 19443MB, user 1089.5s, sys 22.8s, output queue size 1171
progress 50% @chr9:76000001, elapsed 42.3s, est remaining 42.3s, peak mem 20558MB, user 1194.2s, sys 24.7s, output queue size 1333
progress 55% @chr10:96000001, elapsed 48.3s, est remaining 39.5s, peak mem 20804MB, user 1352.6s, sys 25.7s, output queue size 1494
progress 60% @chr12:3000001, elapsed 54.9s, est remaining 36.6s, peak mem 20816MB, user 1566.1s, sys 28.2s, output queue size 1656
progress 65% @chr13:21000001, elapsed 60.2s, est remaining 32.4s, peak mem 20825MB, user 1758.0s, sys 45.6s, output queue size 747
progress 70% @chr14:84000001, elapsed 65.5s, est remaining 28.1s, peak mem 20825MB, user 1934.8s, sys 47.0s, output queue size 908
progress 75% @chr16:42000001, elapsed 71.3s, est remaining 23.8s, peak mem 20888MB, user 2123.7s, sys 48.4s, output queue size 88
progress 80% @chr18:5000001, elapsed 82.5s, est remaining 20.6s, peak mem 20888MB, user 2421.2s, sys 50.7s, output queue size 205
progress 85% @chr20:18000001, elapsed 92.7s, est remaining 16.4s, peak mem 20888MB, user 2734.3s, sys 52.9s, output queue size 367
progress 90% @chrX:33000001, elapsed 104.4s, est remaining 11.6s, peak mem 23157MB, user 3056.1s, sys 54.7s, output queue size 529
progress 95% @chrY:51000001, elapsed 109.0s, est remaining 5.7s, peak mem 25068MB, user 3167.0s, sys 55.9s, output queue size 690
progress 100% @chr19:7000001, elapsed 185.1s, est remaining 0.0s, peak mem 32643MB, user 3537.6s, sys 74.5s, 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: 66489561951
reads: 2171452659
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1381.891 user 49.847 sys 1430.540 real
done: 1 calls 0.409 user 0.330 sys 0.741 real
exec_no_coor: 1 calls 0.038 user 0.085 sys 0.135 real
execute: 1 calls 0.000 user 0.010 sys 185.262 real
idle: 2215 calls 0.251 user 0.004 sys 2177.755 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 34229047296 mem 3541.923 user 76.353 sys 188.596 real