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/02/b57708c393e3369a7fb968375db0d1/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/38/f913094c1f8f3a2fae455b62b31ae9/1136_87O-T1-TDNA-1_A23MHWWLT4_1.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-rnd-pltf-dev-nextflow-scratch-01/work/38/f913094c1f8f3a2fae455b62b31ae9/1136_87O-T1-TDNA-1_A23MHWWLT4_1.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/02/b57708c393e3369a7fb968375db0d1/.command.run
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/foresight/foresight_clarity_targets_hg38.bed
  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 1136_87O-T1-TDNA-1_A23MHWWLT4_1.md.bam --algo HsMetricAlgo --targets_list targets/foresight_clarity_targets_hg38.bed --baits_list baits/xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity.bed 1136_87O-T1-TDNA-1_A23MHWWLT4_1_foresight_clarity_targets_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:175000001, elapsed 5.1s, est remaining 97.4s, peak mem 3383MB, user 115.2s, sys 3.7s, output queue size 146
progress 10% @chr2:80000001, elapsed 8.8s, est remaining 79.5s, peak mem 4359MB, user 237.2s, sys 6.5s, output queue size 166
progress 15% @chr2:177000001, elapsed 12.7s, est remaining 71.7s, peak mem 6088MB, user 361.1s, sys 9.4s, output queue size 122
progress 20% @chr3:174000001, elapsed 16.3s, est remaining 65.3s, peak mem 6104MB, user 471.1s, sys 10.6s, output queue size 141
progress 25% @chr4:129000001, elapsed 19.3s, est remaining 57.8s, peak mem 6281MB, user 559.8s, sys 11.4s, output queue size 302
progress 30% @chr5:101000001, elapsed 21.5s, est remaining 50.3s, peak mem 6281MB, user 623.2s, sys 11.8s, output queue size 464
progress 35% @chr6:91000001, elapsed 25.1s, est remaining 46.6s, peak mem 6361MB, user 716.7s, sys 12.5s, output queue size 625
progress 40% @chr7:56000001, elapsed 29.0s, est remaining 43.5s, peak mem 6649MB, user 849.8s, sys 13.7s, output queue size 195
progress 45% @chr8:67000001, elapsed 33.2s, est remaining 40.6s, peak mem 6797MB, user 974.9s, sys 14.3s, output queue size 204
progress 50% @chr9:102000001, elapsed 36.8s, est remaining 36.8s, peak mem 7037MB, user 1068.2s, sys 15.1s, output queue size 366
progress 55% @chr10:104000001, elapsed 41.0s, est remaining 33.6s, peak mem 7384MB, user 1207.6s, sys 16.2s, output queue size 348
progress 60% @chr11:130000001, elapsed 45.6s, est remaining 30.4s, peak mem 7384MB, user 1343.1s, sys 17.2s, output queue size 510
progress 65% @chr12:111000001, elapsed 49.5s, est remaining 26.7s, peak mem 7384MB, user 1450.6s, sys 17.8s, output queue size 672
progress 70% @chr13:113000001, elapsed 52.2s, est remaining 22.4s, peak mem 7501MB, user 1546.7s, sys 18.6s, output queue size 635
progress 75% @chr16:42000001, elapsed 56.8s, est remaining 18.9s, peak mem 7567MB, user 1691.1s, sys 19.7s, output queue size 461
progress 80% @chr18:1, elapsed 63.8s, est remaining 15.9s, peak mem 7748MB, user 1871.8s, sys 20.8s, output queue size 623
progress 85% @chr19:40000001, elapsed 70.2s, est remaining 12.4s, peak mem 7748MB, user 2107.9s, sys 22.3s, output queue size 351
progress 90% @chr21:44000001, elapsed 74.4s, est remaining 8.3s, peak mem 7798MB, user 2224.5s, sys 23.2s, output queue size 513
progress 95% @chrY:53000001, elapsed 77.7s, est remaining 4.1s, peak mem 7875MB, user 2316.1s, sys 23.6s, output queue size 675
progress 100% @chrX:67000001, elapsed 87.0s, est remaining 0.0s, peak mem 7875MB, user 2454.9s, sys 24.6s, output queue size 3540
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000c06f2
  features: 1f8bfbff fffab20b
  extended: f1bf07ab 1a407f7e
  amd bits: 2c100800 00000121
     brand: Intel(R) Xeon(R) Platinum 8559C
threads: 31 max 192
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 64662667717
reads: 1297852227
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1267.745 user 21.812 sys 1293.592 real
done: 1 calls 0.003 user 0.000 sys 0.011 real
exec_no_coor: 1 calls 0.009 user 0.010 sys 0.029 real
execute: 1 calls 0.007 user 0.001 sys 86.970 real
idle: 276 calls 0.150 user 0.001 sys 246.116 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 8258433024 mem 2455.871 user 24.767 sys 88.277 real