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/25/3bcd4e47e3dda9e9e9c17eb6f74f6e/.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/beds/altera_subpanels/hg38/foresight/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.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/38/f913094c1f8f3a2fae455b62b31ae9/1136_87O-T1-TDNA-1_A23MHWWLT4_1.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/25/3bcd4e47e3dda9e9e9c17eb6f74f6e/.command.run
  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/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.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_xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:187000001, elapsed 5.3s, est remaining 99.9s, peak mem 3643MB, user 118.0s, sys 3.2s, output queue size 146
progress 10% @chr2:94000001, elapsed 9.2s, est remaining 83.0s, peak mem 4615MB, user 248.5s, sys 5.0s, output queue size 166
progress 15% @chr2:208000001, elapsed 13.2s, est remaining 75.0s, peak mem 6162MB, user 379.4s, sys 6.9s, output queue size 122
progress 20% @chr3:174000001, elapsed 17.2s, est remaining 68.7s, peak mem 6268MB, user 498.7s, sys 7.9s, output queue size 141
progress 25% @chr4:135000001, elapsed 20.3s, est remaining 60.9s, peak mem 6365MB, user 597.3s, sys 8.7s, output queue size 302
progress 30% @chr5:107000001, elapsed 22.7s, est remaining 53.0s, peak mem 6465MB, user 658.9s, sys 9.3s, output queue size 464
progress 35% @chr6:91000001, elapsed 26.6s, est remaining 49.4s, peak mem 6712MB, user 768.6s, sys 10.5s, output queue size 625
progress 40% @chr7:56000001, elapsed 30.9s, est remaining 46.3s, peak mem 6898MB, user 904.4s, sys 11.6s, output queue size 195
progress 45% @chr8:74000001, elapsed 35.6s, est remaining 43.5s, peak mem 7083MB, user 1046.0s, sys 12.4s, output queue size 204
progress 50% @chr9:102000001, elapsed 39.3s, est remaining 39.3s, peak mem 7298MB, user 1146.0s, sys 13.2s, output queue size 366
progress 55% @chr10:99000001, elapsed 44.2s, est remaining 36.2s, peak mem 7407MB, user 1302.9s, sys 14.3s, output queue size 348
progress 60% @chr11:101000001, elapsed 49.6s, est remaining 33.1s, peak mem 7407MB, user 1461.0s, sys 15.3s, output queue size 510
progress 65% @chr12:123000001, elapsed 54.2s, est remaining 29.2s, peak mem 7497MB, user 1590.2s, sys 16.2s, output queue size 672
progress 70% @chr14:35000001, elapsed 57.1s, est remaining 24.5s, peak mem 7497MB, user 1689.8s, sys 17.1s, output queue size 635
progress 75% @chr16:42000001, elapsed 62.5s, est remaining 20.8s, peak mem 7552MB, user 1853.5s, sys 17.8s, output queue size 461
progress 80% @chr18:10000001, elapsed 71.0s, est remaining 17.7s, peak mem 7672MB, user 2078.0s, sys 19.4s, output queue size 623
progress 85% @chr19:35000001, elapsed 78.9s, est remaining 13.9s, peak mem 7672MB, user 2359.4s, sys 21.0s, output queue size 351
progress 90% @chrX:15000001, elapsed 83.7s, est remaining 9.3s, peak mem 7728MB, user 2505.9s, sys 21.9s, output queue size 513
progress 95% @chrY:54000001, elapsed 87.6s, est remaining 4.6s, peak mem 7844MB, user 2599.2s, sys 22.3s, output queue size 675
progress 100% @chrX:67000001, elapsed 98.3s, est remaining 0.0s, peak mem 7867MB, user 2765.1s, sys 23.2s, output queue size 3540
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: 64662667717
reads: 1297852227
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1051.440 user 19.642 sys 1068.390 real
done: 1 calls 0.377 user 0.029 sys 0.411 real
exec_no_coor: 1 calls 0.000 user 0.023 sys 0.038 real
execute: 1 calls 0.005 user 0.002 sys 98.339 real
idle: 326 calls 0.165 user 0.001 sys 299.414 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 8249491456 mem 2767.019 user 23.546 sys 100.257 real