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/70/e39d20f71cde887127cb8e1a196252/.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/10/9c315bb6e7871cb298609d78a3f103/1136_76X-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/70/e39d20f71cde887127cb8e1a196252/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/10/9c315bb6e7871cb298609d78a3f103/1136_76X-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_76X-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_76X-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% @chr1:184000001, elapsed 4.7s, est remaining 90.2s, peak mem 3058MB, user 105.3s, sys 2.1s, output queue size 146
progress 10% @chr2:38000001, elapsed 8.3s, est remaining 74.5s, peak mem 3876MB, user 224.8s, sys 3.9s, output queue size 166
progress 15% @chr2:230000001, elapsed 11.9s, est remaining 67.2s, peak mem 4928MB, user 342.4s, sys 5.9s, output queue size 161
progress 20% @chr3:160000001, elapsed 15.3s, est remaining 61.3s, peak mem 5022MB, user 440.2s, sys 7.0s, output queue size 283
progress 25% @chr4:135000001, elapsed 18.1s, est remaining 54.4s, peak mem 5022MB, user 523.1s, sys 7.9s, output queue size 302
progress 30% @chr5:101000001, elapsed 20.2s, est remaining 47.2s, peak mem 5022MB, user 588.8s, sys 8.5s, output queue size 464
progress 35% @chr6:37000001, elapsed 23.9s, est remaining 44.4s, peak mem 5310MB, user 681.8s, sys 9.3s, output queue size 625
progress 40% @chr7:65000001, elapsed 27.5s, est remaining 41.3s, peak mem 5666MB, user 803.1s, sys 10.3s, output queue size 197
progress 45% @chr8:54000001, elapsed 31.5s, est remaining 38.5s, peak mem 5758MB, user 921.8s, sys 11.1s, output queue size 356
progress 50% @chr9:88000001, elapsed 34.4s, est remaining 34.4s, peak mem 5892MB, user 1018.2s, sys 11.8s, output queue size 324
progress 55% @chr10:104000001, elapsed 38.7s, est remaining 31.6s, peak mem 5917MB, user 1137.7s, sys 12.7s, output queue size 348
progress 60% @chr12:3000001, elapsed 43.1s, est remaining 28.7s, peak mem 5936MB, user 1264.4s, sys 13.5s, output queue size 510
progress 65% @chr12:52000001, elapsed 46.9s, est remaining 25.3s, peak mem 6020MB, user 1402.8s, sys 14.3s, output queue size 167
progress 70% @chr14:79000001, elapsed 49.3s, est remaining 21.1s, peak mem 6149MB, user 1483.0s, sys 14.9s, output queue size 299
progress 75% @chr16:41000001, elapsed 53.9s, est remaining 18.0s, peak mem 6149MB, user 1609.3s, sys 15.6s, output queue size 461
progress 80% @chr18:1, elapsed 61.4s, est remaining 15.3s, peak mem 6316MB, user 1810.7s, sys 16.7s, output queue size 623
progress 85% @chr19:55000001, elapsed 68.4s, est remaining 12.1s, peak mem 6433MB, user 2037.4s, sys 17.8s, output queue size 351
progress 90% @chrX:30000001, elapsed 72.1s, est remaining 8.0s, peak mem 6446MB, user 2186.8s, sys 18.5s, output queue size 78
progress 95% @chrY:54000001, elapsed 74.3s, est remaining 3.9s, peak mem 6477MB, user 2244.7s, sys 19.0s, output queue size 240
progress 100% @chr22:23000001, elapsed 84.1s, est remaining 0.0s, peak mem 6517MB, user 2328.7s, 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: 57443072063
reads: 1090378638
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 909.267 user 17.052 sys 927.354 real
done: 1 calls 0.295 user 0.019 sys 0.319 real
exec_no_coor: 1 calls 0.000 user 0.009 sys 0.015 real
execute: 1 calls 0.000 user 0.010 sys 84.157 real
idle: 336 calls 0.165 user 0.000 sys 295.820 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 6835478528 mem 2330.702 user 20.119 sys 85.961 real