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Georgetown-IR-Lab / QuickUMLS

System for Medical Concept Extraction and Linking
MIT License
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Exception in thread "main" java.lang.NoClassDefFoundError #87

Closed samlexrod closed 2 years ago

samlexrod commented 2 years ago

I found that my UMLS installation failed with the exception Exception in thread "main" java.lang.NoClassDefFoundError: Could not initialize class sun.awt.X11GraphicsEnvironment

We are using the following g++ version: g++ (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0

Environment

This might be the cause of my prior issue initializing quickumls.

Prior issue: We are trying to initialize the system but we get the following error: terminate called after throwing an instance of 'cdbpp::builder_exception' what(): Inconsistent stream offset Aborted (core dumped)

It is throwing an error at 68.74%

We are using the following command: python -m quickumls.install <umls_installation_path> <destination_path> -d unqlite

samlexrod commented 2 years ago

I have set the export DISPLAY=:0.0 however, I get the Exception in thread "main" java.lang.NoClassDefFoundError: Could not initialize class sun.awt.X11GraphicsEnvironment error still. It seems that it is missing the class sun.awt.X11GraphicsEnvironment in the java.lang.* package.

soldni commented 2 years ago

looking at this: QuickUMLS does not use any Java component; it's python + a C extension.

Pretty sure the issues you are seeing are due to something outside QuickUMLS.