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/e7/99daf7b0a5338d356df4d2296723b8/.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/e7/99daf7b0a5338d356df4d2296723b8/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/53/db10c5a483ab5aeea888c988e22091/1029_HTI-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/53/db10c5a483ab5aeea888c988e22091/1029_HTI-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 1029_HTI-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 1029_HTI-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% @chr1:173000001, elapsed 5.3s, est remaining 100.2s, peak mem 3144MB, user 115.5s, sys 2.6s, output queue size 150
progress 10% @chr2:94000001, elapsed 9.5s, est remaining 85.7s, peak mem 4560MB, user 256.7s, sys 4.9s, output queue size 166
progress 15% @chr2:197000001, elapsed 14.6s, est remaining 82.9s, peak mem 6013MB, user 414.8s, sys 7.7s, output queue size 122
progress 20% @chr3:174000001, elapsed 18.6s, est remaining 74.4s, peak mem 6047MB, user 534.1s, sys 8.7s, output queue size 283
progress 25% @chr4:136000001, elapsed 22.0s, est remaining 66.0s, peak mem 6047MB, user 649.7s, sys 9.3s, output queue size 302
progress 30% @chr5:101000001, elapsed 24.9s, est remaining 58.0s, peak mem 6129MB, user 722.8s, sys 9.8s, output queue size 464
progress 35% @chr5:132000001, elapsed 29.1s, est remaining 54.0s, peak mem 6322MB, user 840.4s, sys 10.6s, output queue size 625
progress 40% @chr7:56000001, elapsed 33.5s, est remaining 50.3s, peak mem 6496MB, user 988.5s, sys 11.5s, output queue size 195
progress 45% @chr8:70000001, elapsed 39.4s, est remaining 48.1s, peak mem 6818MB, user 1156.1s, sys 12.6s, output queue size 204
progress 50% @chr9:81000001, elapsed 43.9s, est remaining 43.9s, peak mem 7240MB, user 1278.5s, sys 13.6s, output queue size 366
progress 55% @chr10:99000001, elapsed 49.4s, est remaining 40.4s, peak mem 7464MB, user 1454.7s, sys 14.8s, output queue size 348
progress 60% @chr11:130000001, elapsed 55.0s, est remaining 36.7s, peak mem 7505MB, user 1627.8s, sys 15.6s, output queue size 510
progress 65% @chr12:52000001, elapsed 60.4s, est remaining 32.5s, peak mem 7638MB, user 1775.3s, sys 16.3s, output queue size 672
progress 70% @chr14:79000001, elapsed 63.7s, est remaining 27.3s, peak mem 7653MB, user 1916.2s, sys 17.1s, output queue size 299
progress 75% @chr16:42000001, elapsed 69.9s, est remaining 23.3s, peak mem 7689MB, user 2083.5s, sys 17.9s, output queue size 461
progress 80% @chr18:9000001, elapsed 78.4s, est remaining 19.6s, peak mem 7952MB, user 2317.9s, sys 19.3s, output queue size 623
progress 85% @chr19:52000001, elapsed 86.4s, est remaining 15.2s, peak mem 7952MB, user 2595.7s, sys 20.8s, output queue size 351
progress 90% @chrX:35000001, elapsed 92.1s, est remaining 10.2s, peak mem 8132MB, user 2772.4s, sys 21.9s, output queue size 513
progress 95% @chrY:52000001, elapsed 96.3s, est remaining 5.1s, peak mem 8181MB, user 2876.2s, sys 22.5s, output queue size 675
progress 100% @chr22:23000001, elapsed 105.0s, est remaining 0.0s, peak mem 8181MB, user 3027.4s, sys 23.3s, 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: 74334244054
reads: 1460016157
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1194.486 user 20.521 sys 1218.454 real
done: 1 calls 0.377 user 0.028 sys 0.411 real
exec_no_coor: 1 calls 0.006 user 0.019 sys 0.041 real
execute: 1 calls 0.004 user 0.004 sys 105.039 real
idle: 269 calls 0.167 user 0.001 sys 247.499 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 8579354624 mem 3029.280 user 23.914 sys 107.133 real