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sirius-ms / sirius

SIRIUS is a software for discovering a landscape of de-novo identification of metabolites using tandem mass spectrometry. This repository contains the code of the SIRIUS Software (GUI and CLI)
GNU Affero General Public License v3.0
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unexpected error when starting gui #39

Closed xxing9703 closed 2 years ago

xxing9703 commented 3 years ago

I got unexpected errors below when starting "sirius-gui.exe" in my laptop (fine on a different PC). Tried to update JAVA but problem remains. Any ideas on how to fix this? Thanks!

Unexpected error! java.lang.NullPointerException: Cannot invoke "String.length()" because "" is null at java.base/sun.nio.fs.WindowsPathParser.parse(Unknown Source) at java.base/sun.nio.fs.WindowsPathParser.parse(Unknown Source) at java.base/sun.nio.fs.WindowsPath.parse(Unknown Source) at java.base/sun.nio.fs.WindowsFileSystem.getPath(Unknown Source) at java.base/java.nio.file.Path.of(Unknown Source) at java.base/java.nio.file.Paths.get(Unknown Source) at de.unijena.bioinf.chemdb.SearchableDatabases.getDatabaseDirectory(SearchableDatabases.java:61) at de.unijena.bioinf.chemdb.SearchableDatabases.getCustomDatabaseDirectory(SearchableDatabases.java:52) at de.unijena.bioinf.chemdb.SearchableDatabases.loadCustomDatabases(SearchableDatabases.java:148) at de.unijena.bioinf.chemdb.SearchableDatabases.getCustomDatabases(SearchableDatabases.java:130) at de.unijena.bioinf.chemdb.SearchableDatabases.getCustomDatabases(SearchableDatabases.java:125) at de.unijena.bioinf.chemdb.SearchableDatabases.getAvailableDatabases(SearchableDatabases.java:141) at de.unijena.bioinf.ms.frontend.subtools.gui.GuiAppOptions$Flow$2.compute(GuiAppOptions.java:140) at de.unijena.bioinf.ms.frontend.subtools.gui.GuiAppOptions$Flow$2.compute(GuiAppOptions.java:128) at de.unijena.bioinf.jjobs.BasicJJob.call(BasicJJob.java:120) at java.base/java.util.concurrent.FutureTask.run(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) at java.base/java.lang.Thread.run(Unknown Source)

marcus-ludwig commented 2 years ago

Hi, is this error still occurring with SIRIUS version 4.9.5? Updating JAVA won't help, since JAVA is directly bundled and shipped with SIRIUS 4.

xxing9703 commented 2 years ago

Hi, the error is gone for the new version. Thanks!

From: marcus-ludwig @.> Sent: Friday, October 8, 2021 7:45 AM To: boecker-lab/sirius @.> Cc: Xi Xing @.>; Author @.> Subject: Re: [boecker-lab/sirius] unexpected error when starting gui (#39)

Hi, is this error still occurring with SIRIUS version 4.9.5? Updating JAVA won't help, since JAVA is directly bundled and shipped with SIRIUS 4.

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marcus-ludwig commented 2 years ago

Great!