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/2c/e61c4f37ac7d58d434abc53ec2a9d2/.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-rnd-pltf-dev-nextflow-scratch-01/work/3c/05f80ecb4bdae6b39b61214c403343/1136_5TB-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2c/e61c4f37ac7d58d434abc53ec2a9d2/.command.run
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/foresight/foresight_clarity_targets_hg38.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3c/05f80ecb4bdae6b39b61214c403343/1136_5TB-T1-TDNA-1_A23MHWWLT4_1.md.bam
  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_5TB-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_5TB-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% @chr1:181000001, elapsed 6.9s, est remaining 130.6s, peak mem 4757MB, user 150.8s, sys 4.0s, output queue size 146
progress 10% @chr2:38000001, elapsed 12.7s, est remaining 114.0s, peak mem 6566MB, user 334.5s, sys 7.3s, output queue size 166
progress 15% @chr2:237000001, elapsed 17.5s, est remaining 99.2s, peak mem 8100MB, user 502.5s, sys 11.0s, output queue size 122
progress 20% @chr3:167000001, elapsed 21.9s, est remaining 87.5s, peak mem 8100MB, user 628.4s, sys 12.2s, output queue size 283
progress 25% @chr4:124000001, elapsed 25.5s, est remaining 76.6s, peak mem 8100MB, user 745.0s, sys 13.2s, output queue size 302
progress 30% @chr5:101000001, elapsed 28.7s, est remaining 67.1s, peak mem 8377MB, user 838.3s, sys 14.1s, output queue size 464
progress 35% @chr5:140000001, elapsed 33.7s, est remaining 62.6s, peak mem 8768MB, user 972.4s, sys 15.2s, output queue size 625
progress 40% @chr7:66000001, elapsed 38.6s, est remaining 57.9s, peak mem 8820MB, user 1118.9s, sys 16.4s, output queue size 197
progress 45% @chr8:82000001, elapsed 43.9s, est remaining 53.7s, peak mem 9042MB, user 1292.5s, sys 17.9s, output queue size 204
progress 50% @chr9:102000001, elapsed 48.5s, est remaining 48.5s, peak mem 9488MB, user 1414.4s, sys 18.8s, output queue size 366
progress 55% @chr10:99000001, elapsed 53.9s, est remaining 44.1s, peak mem 9674MB, user 1589.3s, sys 20.2s, output queue size 348
progress 60% @chr12:5000001, elapsed 59.1s, est remaining 39.4s, peak mem 9674MB, user 1754.0s, sys 21.6s, output queue size 510
progress 65% @chr11:118000001, elapsed 64.3s, est remaining 34.6s, peak mem 9765MB, user 1896.1s, sys 22.6s, output queue size 672
progress 70% @chr14:79000001, elapsed 67.4s, est remaining 28.9s, peak mem 9765MB, user 2002.9s, sys 23.5s, output queue size 833
progress 75% @chr16:42000001, elapsed 73.3s, est remaining 24.4s, peak mem 9795MB, user 2185.9s, sys 24.5s, output queue size 461
progress 80% @chr18:24000001, elapsed 81.9s, est remaining 20.5s, peak mem 9795MB, user 2406.4s, sys 26.0s, output queue size 623
progress 85% @chr19:42000001, elapsed 89.4s, est remaining 15.8s, peak mem 9795MB, user 2683.3s, sys 28.0s, output queue size 351
progress 90% @chrX:36000001, elapsed 93.8s, est remaining 10.4s, peak mem 9860MB, user 2821.7s, sys 28.9s, output queue size 513
progress 95% @chrY:55000001, elapsed 96.6s, est remaining 5.1s, peak mem 10047MB, user 2895.5s, sys 29.5s, output queue size 675
progress 100% @chr22:23000001, elapsed 107.1s, est remaining 0.0s, peak mem 10199MB, user 3026.9s, sys 30.7s, 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: 89084754634
reads: 1834997666
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1409.207 user 27.079 sys 1441.440 real
done: 1 calls 0.005 user 0.009 sys 0.017 real
exec_no_coor: 1 calls 0.022 user 0.015 sys 0.047 real
execute: 1 calls 0.004 user 0.001 sys 107.123 real
idle: 331 calls 0.188 user 0.001 sys 292.189 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 10694574080 mem 3027.897 user 30.949 sys 108.422 real