Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/14/bf2fc6ec8c205742018d02e0f32e09/.command.sh
  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/pipeline-resources/beds/altera_subpanels/hg38/altera_v3_targets_coding_postQC_hg38.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/3c/05f80ecb4bdae6b39b61214c403343/1136_5TB-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/14/bf2fc6ec8c205742018d02e0f32e09/.command.run
  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/altera_v3_targets_coding_postQC_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_altera_v3_targets_coding_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:177000001, elapsed 6.9s, est remaining 130.2s, peak mem 5173MB, user 150.0s, sys 6.5s, output queue size 146
progress 10% @chr2:70000001, elapsed 12.7s, est remaining 114.3s, peak mem 7291MB, user 332.4s, sys 10.8s, output queue size 166
progress 15% @chr2:201000001, elapsed 17.6s, est remaining 99.8s, peak mem 8799MB, user 500.4s, sys 13.9s, output queue size 122
progress 20% @chr3:158000001, elapsed 21.9s, est remaining 87.5s, peak mem 8799MB, user 624.7s, sys 15.0s, output queue size 283
progress 25% @chr4:124000001, elapsed 25.6s, est remaining 76.9s, peak mem 8799MB, user 747.0s, sys 16.0s, output queue size 302
progress 30% @chr5:94000001, elapsed 28.9s, est remaining 67.5s, peak mem 8799MB, user 838.0s, sys 16.8s, output queue size 464
progress 35% @chr6:56000001, elapsed 33.8s, est remaining 62.8s, peak mem 9029MB, user 973.2s, sys 18.1s, output queue size 625
progress 40% @chr7:65000001, elapsed 38.9s, est remaining 58.4s, peak mem 9389MB, user 1131.6s, sys 19.3s, output queue size 197
progress 45% @chr8:78000001, elapsed 44.2s, est remaining 54.1s, peak mem 9545MB, user 1299.9s, sys 21.0s, output queue size 204
progress 50% @chr9:37000001, elapsed 48.9s, est remaining 48.9s, peak mem 9862MB, user 1424.3s, sys 21.9s, output queue size 366
progress 55% @chr10:99000001, elapsed 54.1s, est remaining 44.3s, peak mem 10116MB, user 1595.6s, sys 23.1s, output queue size 348
progress 60% @chr12:1000001, elapsed 59.4s, est remaining 39.6s, peak mem 10116MB, user 1760.4s, sys 24.4s, output queue size 510
progress 65% @chr13:33000001, elapsed 64.7s, est remaining 34.8s, peak mem 10116MB, user 1893.1s, sys 25.3s, output queue size 672
progress 70% @chr14:35000001, elapsed 67.9s, est remaining 29.1s, peak mem 10116MB, user 2007.8s, sys 26.0s, output queue size 833
progress 75% @chr16:42000001, elapsed 73.5s, est remaining 24.5s, peak mem 10116MB, user 2190.7s, sys 26.9s, output queue size 461
progress 80% @chr18:13000001, elapsed 82.1s, est remaining 20.5s, peak mem 10116MB, user 2417.3s, sys 28.3s, output queue size 623
progress 85% @chr19:57000001, elapsed 89.9s, est remaining 15.9s, peak mem 10116MB, user 2655.8s, sys 29.7s, output queue size 785
progress 90% @chrX:36000001, elapsed 94.4s, est remaining 10.5s, peak mem 10116MB, user 2826.4s, sys 30.8s, output queue size 513
progress 95% @chrY:55000001, elapsed 97.2s, est remaining 5.1s, peak mem 10116MB, user 2913.5s, sys 31.3s, output queue size 675
progress 100% @chr22:23000001, elapsed 107.7s, est remaining 0.0s, peak mem 10334MB, user 3046.0s, sys 32.1s, 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 1417.291 user 28.047 sys 1443.851 real
done: 1 calls 0.008 user 0.017 sys 0.035 real
exec_no_coor: 1 calls 0.006 user 0.019 sys 0.044 real
execute: 1 calls 0.002 user 0.002 sys 107.752 real
idle: 324 calls 0.195 user 0.001 sys 291.609 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 10836557824 mem 3046.873 user 32.395 sys 109.044 real