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/4e/e7fc905ed04c7c796f8520fa6f65a9/.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/0a/33b1c3ef876f67c1658eae3a9e8968/1047_JG-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0a/33b1c3ef876f67c1658eae3a9e8968/1047_JG-T1-TDNA-1_A23MHWWLT4_1.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4e/e7fc905ed04c7c796f8520fa6f65a9/.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 1047_JG-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 1047_JG-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 12.2s, est remaining 231.9s, peak mem 8135MB, user 295.2s, sys 18.6s, output queue size 58
progress 10% @chr2:90000001, elapsed 21.5s, est remaining 193.6s, peak mem 9600MB, user 589.9s, sys 23.9s, output queue size 56
progress 15% @chr2:189000001, elapsed 32.9s, est remaining 186.7s, peak mem 13389MB, user 913.2s, sys 32.0s, output queue size 122
progress 20% @chr3:176000001, elapsed 42.1s, est remaining 168.5s, peak mem 13567MB, user 1207.3s, sys 36.5s, output queue size 141
progress 25% @chr4:98000001, elapsed 50.5s, est remaining 151.5s, peak mem 13810MB, user 1464.1s, sys 38.9s, output queue size 302
progress 30% @chr4:186000001, elapsed 57.0s, est remaining 133.0s, peak mem 14457MB, user 1655.6s, sys 40.8s, output queue size 464
progress 35% @chr5:132000001, elapsed 66.2s, est remaining 123.0s, peak mem 14796MB, user 1905.5s, sys 43.0s, output queue size 625
progress 40% @chr7:66000001, elapsed 76.5s, est remaining 114.7s, peak mem 15141MB, user 2193.8s, sys 45.1s, output queue size 786
progress 45% @chr8:74000001, elapsed 88.0s, est remaining 107.5s, peak mem 15376MB, user 2573.6s, sys 47.4s, output queue size 204
progress 50% @chr9:91000001, elapsed 97.5s, est remaining 97.5s, peak mem 15681MB, user 2842.4s, sys 49.6s, output queue size 366
progress 55% @chr10:96000001, elapsed 109.0s, est remaining 89.2s, peak mem 15714MB, user 3166.8s, sys 51.7s, output queue size 527
progress 60% @chr12:1000001, elapsed 120.2s, est remaining 80.1s, peak mem 15718MB, user 3548.3s, sys 53.6s, output queue size 510
progress 65% @chr12:111000001, elapsed 132.4s, est remaining 71.3s, peak mem 16085MB, user 3872.2s, sys 55.7s, output queue size 672
progress 70% @chr13:109000001, elapsed 139.7s, est remaining 59.9s, peak mem 16093MB, user 4129.8s, sys 57.3s, output queue size 833
progress 75% @chr16:42000001, elapsed 152.4s, est remaining 50.8s, peak mem 16197MB, user 4451.9s, sys 59.1s, output queue size 995
progress 80% @chr18:27000001, elapsed 169.9s, est remaining 42.5s, peak mem 16232MB, user 4995.8s, sys 61.6s, output queue size 623
progress 85% @chr20:23000001, elapsed 185.8s, est remaining 32.8s, peak mem 16357MB, user 5500.9s, sys 64.5s, output queue size 785
progress 90% @chrX:32000001, elapsed 195.6s, est remaining 21.7s, peak mem 16603MB, user 5873.5s, sys 67.0s, output queue size 513
progress 95% @chrY:54000001, elapsed 202.8s, est remaining 10.7s, peak mem 16603MB, user 6107.6s, sys 68.4s, output queue size 240
progress 100% @chrX:67000001, elapsed 221.3s, est remaining 0.0s, peak mem 16603MB, user 6348.4s, sys 70.0s, 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: 140423331250
reads: 3098808471
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 2363.509 user 61.700 sys 2415.912 real
done: 1 calls 0.313 user 0.066 sys 0.381 real
exec_no_coor: 1 calls 0.031 user 0.055 sys 0.108 real
execute: 1 calls 0.001 user 0.001 sys 221.320 real
idle: 509 calls 0.173 user 0.001 sys 479.880 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 17409921024 mem 6350.644 user 70.938 sys 224.480 real