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/95/39e974fdd592c37f41e59923498284/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f5/a9e2ccd0c8e1b97d551b9ee4f0aee5/Sig_18_tissue.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/altera_v3_targets_postQC_hg38.bed
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/95/39e974fdd592c37f41e59923498284/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f5/a9e2ccd0c8e1b97d551b9ee4f0aee5/Sig_18_tissue.md.bam
  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 Sig_18_tissue.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 Sig_18_tissue_altera_v3_targets_postQC_hg38.sentieon.hs_metrics
This software is licensed to bgold@natera.com by Sentieon Inc.
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
No more license available for sentieon:Metrics
progress 5% @chr1:160000001, elapsed 720.1s, est remaining 13682.8s, peak mem 102MB, user 0.1s, sys 0.5s, output queue size 1
progress 10% @chr2:72000001, elapsed 720.2s, est remaining 6481.6s, peak mem 102MB, user 0.2s, sys 1.3s, output queue size 2
progress 15% @chr2:209000001, elapsed 720.2s, est remaining 4081.2s, peak mem 102MB, user 0.2s, sys 2.2s, output queue size 26
progress 20% @chr3:158000001, elapsed 720.2s, est remaining 2880.9s, peak mem 102MB, user 0.3s, sys 3.0s, output queue size 26
progress 25% @chr4:120000001, elapsed 720.3s, est remaining 2160.8s, peak mem 102MB, user 0.4s, sys 3.8s, output queue size 20
progress 30% @chr5:92000001, elapsed 720.3s, est remaining 1680.7s, peak mem 102MB, user 0.5s, sys 4.7s, output queue size 11
progress 35% @chr6:71000001, elapsed 720.3s, est remaining 1337.7s, peak mem 102MB, user 0.5s, sys 5.5s, output queue size 9
progress 40% @chr7:58000001, elapsed 720.3s, est remaining 1080.5s, peak mem 102MB, user 0.7s, sys 6.2s, output queue size 6
progress 45% @chr8:57000001, elapsed 720.4s, est remaining 880.5s, peak mem 102MB, user 0.7s, sys 6.9s, output queue size 10
progress 50% @chr9:72000001, elapsed 720.4s, est remaining 720.4s, peak mem 102MB, user 0.8s, sys 7.7s, output queue size 1
progress 55% @chr10:94000001, elapsed 720.4s, est remaining 589.4s, peak mem 102MB, user 0.9s, sys 8.5s, output queue size 13
progress 60% @chr11:96000001, elapsed 720.5s, est remaining 480.3s, peak mem 102MB, user 1.0s, sys 9.3s, output queue size 27
progress 65% @chr12:127000001, elapsed 720.5s, est remaining 388.0s, peak mem 102MB, user 1.0s, sys 10.1s, output queue size 22
progress 70% @chr14:35000001, elapsed 720.5s, est remaining 308.8s, peak mem 102MB, user 1.1s, sys 10.8s, output queue size 26
progress 75% @chr16:15000001, elapsed 720.5s, est remaining 240.2s, peak mem 102MB, user 1.2s, sys 11.6s, output queue size 20
progress 80% @chr18:1, elapsed 720.6s, est remaining 180.1s, peak mem 102MB, user 1.2s, sys 12.5s, output queue size 13
progress 85% @chr20:22000001, elapsed 720.6s, est remaining 127.2s, peak mem 102MB, user 1.3s, sys 13.3s, output queue size 2
progress 90% @chrX:37000001, elapsed 720.7s, est remaining 80.1s, peak mem 133MB, user 1.6s, sys 13.8s, output queue size 114
progress 95% @chr21:43000001, elapsed 720.7s, est remaining 37.9s, peak mem 144MB, user 2.2s, sys 14.6s, output queue size 271
progress 100% @chr21:41000001, elapsed 721.2s, est remaining 0.0s, peak mem 159MB, user 3.4s, sys 15.6s, output queue size 3664
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: 50047064
reads: 1001838
contig: 3367 intervals 3217346917 bases
advance: 3219322 calls 1.326 user 8.229 sys 9.689 real
done: 1 calls 0.000 user 0.000 sys 0.003 real
exec_no_coor: 1 calls 0.000 user 0.000 sys 0.000 real
execute: 1 calls 0.004 user 0.002 sys 721.199 real
idle: 61 calls 0.007 user 0.022 sys 44.413 real
init: 1 calls 0.000 user 0.000 sys 0.000 real
overall: 166977536 mem 3.636 user 16.323 sys 722.354 real