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GRIDSS: the Genomic Rearrangement IDentification Software Suite
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VirusBreakend Running Error #633

Open DAWNkKim opened 1 year ago

DAWNkKim commented 1 year ago

Hello,

image

The error message found in the log file is as follows: Caused by: java.lang.ClassNotFoundException gridss.karken.SubsetToTaxonomy

I looked up "gridss.karken.SubsetToTaxonomy" and found it in the file "SubsetToTaxonomy.java" located at "/home/kde/PROJECTS/VirusIntegrationTools/download/gridss/src/main/java/gridss/kraken/SubsetToTaxonomy.java".

So I added the path and tried 2 ways. export PATH=$PATH:/home/kde/PROJECTS/VirusIntegrationTools/download/gridss/src/main/java/gridss/kraken/

  1. change SubsetToTaxonomy.java to gridss.kraken.SubsetToTaxonomy -> Same error occurs
  2. change gridss.kraken.SubsetToTaxonomy to SubsetToTaxonomy.java in virusbreakend script -> Same error occurs

How can I fix this?

Thanks.