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/67/02d708063449670526d91e31608c42/.command.sh
  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-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/FINAL_hotspot_list_07302025_hg38_sorted.bed
  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/67/02d708063449670526d91e31608c42/.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/FINAL_hotspot_list_07302025_hg38_sorted.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_FINAL_hotspot_list_07302025_hg38_sorted.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:177000001, elapsed 10.3s, est remaining 195.1s, peak mem 7464MB, user 246.3s, sys 21.8s, output queue size 58
progress 10% @chr2:27000001, elapsed 18.3s, est remaining 165.0s, peak mem 8906MB, user 484.3s, sys 26.4s, output queue size 68
progress 15% @chr3:8000001, elapsed 27.6s, est remaining 156.4s, peak mem 12375MB, user 758.5s, sys 36.0s, output queue size 122
progress 20% @chr3:178000001, elapsed 35.4s, est remaining 141.5s, peak mem 12472MB, user 988.1s, sys 39.8s, output queue size 174
progress 25% @chr4:135000001, elapsed 42.4s, est remaining 127.1s, peak mem 12579MB, user 1215.3s, sys 43.0s, output queue size 302
progress 30% @chr5:100000001, elapsed 47.7s, est remaining 111.3s, peak mem 13313MB, user 1367.7s, sys 45.1s, output queue size 464
progress 35% @chr6:79000001, elapsed 55.3s, est remaining 102.7s, peak mem 13535MB, user 1575.3s, sys 48.1s, output queue size 625
progress 40% @chr7:66000001, elapsed 63.8s, est remaining 95.8s, peak mem 14610MB, user 1812.2s, sys 51.6s, output queue size 786
progress 45% @chr8:58000001, elapsed 73.6s, est remaining 90.0s, peak mem 14678MB, user 2097.5s, sys 55.0s, output queue size 948
progress 50% @chr9:87000001, elapsed 81.9s, est remaining 81.9s, peak mem 15512MB, user 2358.8s, sys 57.4s, output queue size 366
progress 55% @chr10:118000001, elapsed 90.5s, est remaining 74.0s, peak mem 15512MB, user 2615.3s, sys 59.6s, output queue size 527
progress 60% @chr11:130000001, elapsed 99.1s, est remaining 66.0s, peak mem 15512MB, user 2878.1s, sys 61.5s, output queue size 689
progress 65% @chr13:18000001, elapsed 108.4s, est remaining 58.4s, peak mem 15574MB, user 3157.3s, sys 63.2s, output queue size 672
progress 70% @chr14:79000001, elapsed 114.2s, est remaining 48.9s, peak mem 15574MB, user 3369.8s, sys 64.7s, output queue size 833
progress 75% @chr16:42000001, elapsed 123.6s, est remaining 41.2s, peak mem 15644MB, user 3603.9s, sys 66.2s, output queue size 995
progress 80% @chr16:89000001, elapsed 137.2s, est remaining 34.3s, peak mem 15702MB, user 4025.3s, sys 68.9s, output queue size 623
progress 85% @chr19:45000001, elapsed 148.6s, est remaining 26.2s, peak mem 15702MB, user 4382.1s, sys 70.8s, output queue size 785
progress 90% @chrX:32000001, elapsed 156.4s, est remaining 17.4s, peak mem 16192MB, user 4679.8s, sys 72.9s, output queue size 513
progress 95% @chrY:54000001, elapsed 162.2s, est remaining 8.5s, peak mem 16192MB, user 4824.8s, sys 74.2s, output queue size 675
progress 100% @chrX:67000001, elapsed 180.4s, est remaining 0.0s, peak mem 16380MB, user 5071.2s, sys 76.2s, output queue size 3540
sw version: sentieon-genomics-202308.03
os version: Linux 6.12.88
cpu vendor: GenuineIntel
 signature: 000c06f2
  features: bfebfbff 7ffefbff
  extended: f3bfb7ef fb417ffe
  amd bits: 2c100800 00000121
     brand: INTEL(R) XEON(R) PLATINUM 8559C
threads: 31 max 192
algo: HsMetricAlgo
license: sentieon:Metrics=31
input file size: 140423331250
reads: 3098808471
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 2346.880 user 69.275 sys 2408.859 real
done: 1 calls 0.000 user 0.000 sys 0.003 real
exec_no_coor: 1 calls 0.040 user 0.048 sys 0.149 real
execute: 1 calls 0.001 user 0.000 sys 180.455 real
idle: 498 calls 0.134 user 0.002 sys 472.049 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 17176424448 mem 5072.317 user 77.500 sys 182.642 real