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/4b/8a67a4930c75ff0573fec03e4ea2c8/1136_4Z5-T1-TDNA-1_A23MHWWLT4_1.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4b/8a67a4930c75ff0573fec03e4ea2c8/1136_4Z5-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/84/4b7b4f34554f1d306dbe5afbc55332/.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/84/4b7b4f34554f1d306dbe5afbc55332/.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_4Z5-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_4Z5-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% @chr1:178000001, elapsed 4.4s, est remaining 83.8s, peak mem 2945MB, user 100.0s, sys 2.8s, output queue size 150
progress 10% @chr1:205000001, elapsed 8.4s, est remaining 75.8s, peak mem 3861MB, user 234.6s, sys 4.8s, output queue size 117
progress 15% @chr3:11000001, elapsed 13.8s, est remaining 78.3s, peak mem 5683MB, user 387.4s, sys 6.8s, output queue size 122
progress 20% @chr3:176000001, elapsed 17.3s, est remaining 69.3s, peak mem 5755MB, user 498.0s, sys 7.7s, output queue size 283
progress 25% @chr4:124000001, elapsed 20.2s, est remaining 60.7s, peak mem 5755MB, user 585.1s, sys 8.2s, output queue size 444
progress 30% @chr5:83000001, elapsed 22.6s, est remaining 52.7s, peak mem 5779MB, user 659.1s, sys 8.8s, output queue size 606
progress 35% @chr6:80000001, elapsed 26.7s, est remaining 49.5s, peak mem 6377MB, user 764.4s, sys 9.5s, output queue size 767
progress 40% @chr7:47000001, elapsed 31.7s, est remaining 47.6s, peak mem 7466MB, user 891.5s, sys 10.5s, output queue size 928
progress 45% @chr8:78000001, elapsed 38.4s, est remaining 46.9s, peak mem 7937MB, user 1086.6s, sys 12.3s, output queue size 357
progress 50% @chr9:89000001, elapsed 42.6s, est remaining 42.6s, peak mem 8110MB, user 1237.9s, sys 13.7s, output queue size 507
progress 55% @chr10:118000001, elapsed 47.2s, est remaining 38.6s, peak mem 9022MB, user 1363.8s, sys 14.6s, output queue size 668
progress 60% @chr11:121000001, elapsed 52.6s, est remaining 35.1s, peak mem 11852MB, user 1516.9s, sys 15.4s, output queue size 830
progress 65% @chr12:114000001, elapsed 57.5s, est remaining 30.9s, peak mem 12110MB, user 1653.7s, sys 16.1s, output queue size 992
progress 70% @chr14:69000001, elapsed 61.4s, est remaining 26.3s, peak mem 13722MB, user 1779.6s, sys 16.7s, output queue size 1153
progress 75% @chr16:42000001, elapsed 66.8s, est remaining 22.3s, peak mem 14096MB, user 1958.9s, sys 18.0s, output queue size 1132
progress 80% @chr17:65000001, elapsed 73.7s, est remaining 18.4s, peak mem 14100MB, user 2171.2s, sys 19.3s, output queue size 1294
progress 85% @chr19:55000001, elapsed 80.7s, est remaining 14.2s, peak mem 14175MB, user 2373.4s, sys 20.3s, output queue size 1456
progress 90% @chrX:35000001, elapsed 84.8s, est remaining 9.4s, peak mem 14176MB, user 2530.6s, sys 20.9s, output queue size 1618
progress 95% @chrY:54000001, elapsed 87.4s, est remaining 4.6s, peak mem 14204MB, user 2603.6s, sys 21.3s, output queue size 1780
progress 100% @chr7:55000001, elapsed 586.0s, est remaining 0.0s, peak mem 20038MB, user 3200.1s, sys 36.2s, output queue size 5204
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: 71921241447
reads: 1527741288
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1212.872 user 27.826 sys 1238.955 real
done: 1 calls 0.234 user 0.077 sys 0.314 real
exec_no_coor: 1 calls 0.000 user 0.034 sys 0.057 real
execute: 1 calls 0.001 user 0.001 sys 586.307 real
idle: 15007 calls 0.566 user 0.119 sys 14972.968 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 21011636224 mem 3202.362 user 37.247 sys 588.412 real