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/91/a2ff5b53b0a342be77952fdc126efb/.command.sh
  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/8f/456c7297230f9d5b53e61a8b972390/1136_4GR-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8f/456c7297230f9d5b53e61a8b972390/1136_4GR-T1-TDNA-1_A23MHWWLT4_1.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/91/a2ff5b53b0a342be77952fdc126efb/.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_4GR-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_4GR-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% @chr1:169000001, elapsed 4.0s, est remaining 76.8s, peak mem 2675MB, user 92.2s, sys 2.4s, output queue size 146
progress 10% @chr2:91000001, elapsed 7.3s, est remaining 65.9s, peak mem 3614MB, user 192.2s, sys 4.1s, output queue size 166
progress 15% @chr2:224000001, elapsed 10.8s, est remaining 61.1s, peak mem 4623MB, user 308.0s, sys 6.9s, output queue size 122
progress 20% @chr3:176000001, elapsed 13.8s, est remaining 55.4s, peak mem 4668MB, user 394.5s, sys 7.5s, output queue size 283
progress 25% @chr4:129000001, elapsed 16.3s, est remaining 48.8s, peak mem 4668MB, user 474.6s, sys 8.3s, output queue size 302
progress 30% @chr5:94000001, elapsed 18.1s, est remaining 42.3s, peak mem 4668MB, user 527.5s, sys 8.7s, output queue size 464
progress 35% @chr6:80000001, elapsed 21.3s, est remaining 39.5s, peak mem 4838MB, user 610.7s, sys 9.4s, output queue size 625
progress 40% @chr7:66000001, elapsed 24.9s, est remaining 37.3s, peak mem 5234MB, user 717.9s, sys 10.3s, output queue size 197
progress 45% @chr8:79000001, elapsed 28.5s, est remaining 34.8s, peak mem 5383MB, user 827.9s, sys 11.3s, output queue size 356
progress 50% @chr9:94000001, elapsed 32.2s, est remaining 32.2s, peak mem 5525MB, user 925.9s, sys 11.9s, output queue size 366
progress 55% @chr10:120000001, elapsed 36.2s, est remaining 29.6s, peak mem 5724MB, user 1062.1s, sys 12.5s, output queue size 348
progress 60% @chr12:1000001, elapsed 40.4s, est remaining 26.9s, peak mem 5841MB, user 1184.4s, sys 13.3s, output queue size 510
progress 65% @chr12:106000001, elapsed 44.6s, est remaining 24.0s, peak mem 5959MB, user 1323.2s, sys 14.3s, output queue size 474
progress 70% @chr14:85000001, elapsed 47.1s, est remaining 20.2s, peak mem 5967MB, user 1411.1s, sys 15.0s, output queue size 299
progress 75% @chr16:42000001, elapsed 51.2s, est remaining 17.1s, peak mem 6023MB, user 1525.2s, sys 15.7s, output queue size 461
progress 80% @chr18:13000001, elapsed 57.9s, est remaining 14.5s, peak mem 6116MB, user 1702.8s, sys 16.7s, output queue size 623
progress 85% @chr19:47000001, elapsed 64.2s, est remaining 11.3s, peak mem 6168MB, user 1922.6s, sys 17.9s, output queue size 351
progress 90% @chrX:30000001, elapsed 68.4s, est remaining 7.6s, peak mem 6377MB, user 2051.0s, sys 18.6s, output queue size 513
progress 95% @chrY:53000001, elapsed 70.5s, est remaining 3.7s, peak mem 6427MB, user 2127.4s, sys 19.1s, output queue size 240
progress 100% @chr22:23000001, elapsed 77.8s, est remaining 0.0s, peak mem 6427MB, user 2203.4s, sys 19.7s, 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: 54881652601
reads: 1048916945
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 866.251 user 17.171 sys 887.140 real
done: 1 calls 0.256 user 0.069 sys 0.334 real
exec_no_coor: 1 calls 0.000 user 0.014 sys 0.028 real
execute: 1 calls 0.004 user 0.001 sys 77.861 real
idle: 251 calls 0.163 user 0.001 sys 226.523 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 6739898368 mem 2205.378 user 20.178 sys 79.697 real