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VirusBreakend Running Error #633

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DAWNkKim opened this issue Jun 26, 2023 · 0 comments
Open

VirusBreakend Running Error #633

DAWNkKim opened this issue Jun 26, 2023 · 0 comments

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@DAWNkKim
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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.

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