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/31/55b0b2cf74f9ff6a474e524cde4ca7/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/12/b67be7e02742b3f5c7d852dac7c92d/659_bgw-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta.fai
  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/12/b67be7e02742b3f5c7d852dac7c92d/659_bgw-T1-TDNA-1_A23MHWWLT4_1.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/31/55b0b2cf74f9ff6a474e524cde4ca7/.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 659_bgw-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 659_bgw-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% @chr1:175000001, elapsed 3.4s, est remaining 65.4s, peak mem 2568MB, user 82.7s, sys 2.8s, output queue size 44
progress 10% @chr2:42000001, elapsed 7.1s, est remaining 64.3s, peak mem 3950MB, user 192.3s, sys 4.5s, output queue size 79
progress 15% @chr2:232000001, elapsed 11.6s, est remaining 65.6s, peak mem 6253MB, user 318.6s, sys 7.5s, output queue size 188
progress 20% @chr3:176000001, elapsed 14.8s, est remaining 59.3s, peak mem 6315MB, user 424.4s, sys 9.0s, output queue size 174
progress 25% @chr4:98000001, elapsed 17.3s, est remaining 51.8s, peak mem 6315MB, user 504.1s, sys 9.7s, output queue size 302
progress 30% @chr5:107000001, elapsed 19.3s, est remaining 45.0s, peak mem 6315MB, user 568.6s, sys 10.3s, output queue size 464
progress 35% @chr6:81000001, elapsed 22.5s, est remaining 41.7s, peak mem 6778MB, user 656.0s, sys 11.3s, output queue size 625
progress 40% @chr7:79000001, elapsed 26.1s, est remaining 39.2s, peak mem 7100MB, user 744.0s, sys 12.3s, output queue size 786
progress 45% @chr8:82000001, elapsed 30.0s, est remaining 36.7s, peak mem 7343MB, user 861.9s, sys 13.5s, output queue size 948
progress 50% @chr9:89000001, elapsed 33.1s, est remaining 33.1s, peak mem 7343MB, user 965.6s, sys 14.7s, output queue size 366
progress 55% @chr10:99000001, elapsed 36.6s, est remaining 30.0s, peak mem 7366MB, user 1074.7s, sys 15.6s, output queue size 527
progress 60% @chr11:134000001, elapsed 40.2s, est remaining 26.8s, peak mem 7366MB, user 1176.2s, sys 16.4s, output queue size 689
progress 65% @chr12:113000001, elapsed 44.3s, est remaining 23.8s, peak mem 7488MB, user 1297.0s, sys 17.6s, output queue size 672
progress 70% @chr13:109000001, elapsed 46.6s, est remaining 20.0s, peak mem 7488MB, user 1384.5s, sys 18.3s, output queue size 635
progress 75% @chr16:42000001, elapsed 50.5s, est remaining 16.8s, peak mem 7488MB, user 1499.7s, sys 19.1s, output queue size 461
progress 80% @chr17:31000001, elapsed 55.1s, est remaining 13.8s, peak mem 7508MB, user 1634.6s, sys 20.2s, output queue size 623
progress 85% @chr20:20000001, elapsed 59.3s, est remaining 10.5s, peak mem 7508MB, user 1762.5s, sys 21.1s, output queue size 785
progress 90% @chrX:31000001, elapsed 62.0s, est remaining 6.9s, peak mem 7582MB, user 1848.6s, sys 21.7s, output queue size 947
progress 95% @chrY:53000001, elapsed 63.9s, est remaining 3.4s, peak mem 7582MB, user 1917.3s, sys 22.3s, output queue size 675
progress 100% @chrX:67000001, elapsed 68.7s, est remaining 0.0s, peak mem 7685MB, user 1994.9s, sys 22.9s, 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: 62674382657
reads: 1298116536
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1015.351 user 20.581 sys 1039.534 real
done: 1 calls 0.000 user 0.003 sys 0.003 real
exec_no_coor: 1 calls 0.013 user 0.000 sys 0.028 real
execute: 1 calls 0.001 user 0.001 sys 68.706 real
idle: 162 calls 0.164 user 0.001 sys 141.125 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 8058404864 mem 1995.912 user 23.406 sys 70.208 real