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/64/faeb814f49a32fccb4be34bbbbe690/659_cuO-T1-TDNA-1_A23MHWWLT4_1.md.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e6/6549bb32cc68fd4fa7c760b2dbe0bc/.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/64/faeb814f49a32fccb4be34bbbbe690/659_cuO-T1-TDNA-1_A23MHWWLT4_1.md.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/beds/altera_subpanels/hg38/altera_v3_targets_postQC_hg38.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e6/6549bb32cc68fd4fa7c760b2dbe0bc/.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_cuO-T1-TDNA-1_A23MHWWLT4_1.md.bam --algo HsMetricAlgo --targets_list targets/altera_v3_targets_postQC_hg38.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_cuO-T1-TDNA-1_A23MHWWLT4_1_altera_v3_targets_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
progress 5% @chr1:160000001, elapsed 0.5s, est remaining 9.7s, peak mem 592MB, user 12.1s, sys 0.5s, output queue size 145
progress 10% @chr1:226000001, elapsed 0.9s, est remaining 8.2s, peak mem 720MB, user 25.1s, sys 0.8s, output queue size 96
progress 15% @chr2:218000001, elapsed 1.4s, est remaining 7.9s, peak mem 1022MB, user 38.3s, sys 0.9s, output queue size 203
progress 20% @chr3:174000001, elapsed 1.8s, est remaining 7.2s, peak mem 1044MB, user 51.0s, sys 1.3s, output queue size 174
progress 25% @chr4:124000001, elapsed 2.2s, est remaining 6.6s, peak mem 1053MB, user 62.9s, sys 1.5s, output queue size 302
progress 30% @chr5:104000001, elapsed 2.5s, est remaining 5.8s, peak mem 1093MB, user 72.4s, sys 1.6s, output queue size 464
progress 35% @chr6:78000001, elapsed 2.9s, est remaining 5.4s, peak mem 1113MB, user 83.9s, sys 1.8s, output queue size 625
progress 40% @chr7:47000001, elapsed 3.3s, est remaining 5.0s, peak mem 1137MB, user 97.3s, sys 2.0s, output queue size 194
progress 45% @chr8:70000001, elapsed 3.8s, est remaining 4.7s, peak mem 1137MB, user 111.5s, sys 2.2s, output queue size 204
progress 50% @chr9:91000001, elapsed 4.2s, est remaining 4.2s, peak mem 1185MB, user 122.9s, sys 2.3s, output queue size 366
progress 55% @chr10:103000001, elapsed 4.7s, est remaining 3.9s, peak mem 1207MB, user 136.6s, sys 2.6s, output queue size 527
progress 60% @chr12:3000001, elapsed 5.2s, est remaining 3.5s, peak mem 1213MB, user 152.4s, sys 2.7s, output queue size 510
progress 65% @chr13:30000001, elapsed 5.6s, est remaining 3.0s, peak mem 1223MB, user 166.0s, sys 2.9s, output queue size 672
progress 70% @chr14:79000001, elapsed 5.9s, est remaining 2.5s, peak mem 1223MB, user 173.8s, sys 3.1s, output queue size 833
progress 75% @chr16:40000001, elapsed 6.5s, est remaining 2.2s, peak mem 1242MB, user 188.6s, sys 3.3s, output queue size 995
progress 80% @chr17:65000001, elapsed 7.1s, est remaining 1.8s, peak mem 1244MB, user 209.0s, sys 3.5s, output queue size 623
progress 85% @chr20:20000001, elapsed 7.7s, est remaining 1.4s, peak mem 1244MB, user 228.3s, sys 3.7s, output queue size 785
progress 90% @chrX:31000001, elapsed 8.1s, est remaining 0.9s, peak mem 1244MB, user 242.7s, sys 3.9s, output queue size 513
progress 95% @chrY:26000001, elapsed 8.5s, est remaining 0.4s, peak mem 1244MB, user 251.7s, sys 4.0s, output queue size 675
progress 100% @chrX:67000001, elapsed 9.1s, est remaining 0.0s, peak mem 1271MB, user 262.8s, sys 4.2s, 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: 8443237896
reads: 177115205
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 136.729 user 3.033 sys 140.437 real
done: 1 calls 0.026 user 0.000 sys 0.031 real
exec_no_coor: 1 calls 0.001 user 0.000 sys 0.003 real
execute: 1 calls 0.004 user 0.001 sys 9.120 real
idle: 76 calls 0.070 user 0.000 sys 45.445 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 1333145600 mem 263.829 user 4.368 sys 10.330 real