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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 sirius #102

Closed AndreaCa96 closed 1 year ago

AndreaCa96 commented 1 year ago

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

Unexpected error! java.lang.NullPointerException at java.base/java.util.Objects.requireNonNull(Unknown Source) at java.base/sun.nio.fs.UnixFileSystem.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:76) at de.unijena.bioinf.chemdb.SearchableDatabases.getCustomDatabaseDirectory(SearchableDatabases.java:57) at de.unijena.bioinf.chemdb.SearchableDatabases.loadCustomDatabases(SearchableDatabases.java:171) at de.unijena.bioinf.chemdb.SearchableDatabases.getCustomDatabases(SearchableDatabases.java:153) at de.unijena.bioinf.chemdb.SearchableDatabases.getCustomDatabases(SearchableDatabases.java:148) at de.unijena.bioinf.chemdb.SearchableDatabases.getAvailableDatabases(SearchableDatabases.java:164) at de.unijena.bioinf.ms.frontend.subtools.gui.GuiAppOptions$Flow$2.compute(GuiAppOptions.java:142) at de.unijena.bioinf.ms.frontend.subtools.gui.GuiAppOptions$Flow$2.compute(GuiAppOptions.java:133) at de.unijena.bioinf.jjobs.BasicJJob.call(BasicJJob.java:117) at java.base/java.util.concurrent.FutureTask.run(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) at java.base/java.lang.Thread.run(Unknown Source)

mfleisch commented 1 year ago

sirius-gui.exe is a window executable and only part of the windows version. Please download and install the mac version instead. e.g. here: https://github.com/bright-giant/sirius/releases/download/v5.6.3/sirius-5.6.3-osx64.pkg

Please reopen if this does not solve your issue.

AndreaCa96 commented 1 year ago

I did installed the mac version but i had always the same error:

Unexpected error! java.lang.NullPointerException at java.base/java.util.Objects.requireNonNull(Unknown Source) at java.base/sun.nio.fs.UnixFileSystem.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:76) at de.unijena.bioinf.chemdb.SearchableDatabases.getCustomDatabaseDirectory(SearchableDatabases.java:57) at de.unijena.bioinf.chemdb.SearchableDatabases.loadCustomDatabases(SearchableDatabases.java:171) at de.unijena.bioinf.chemdb.SearchableDatabases.getCustomDatabases(SearchableDatabases.java:153) at de.unijena.bioinf.chemdb.SearchableDatabases.getCustomDatabases(SearchableDatabases.java:148) at de.unijena.bioinf.chemdb.SearchableDatabases.getAvailableDatabases(SearchableDatabases.java:164) at de.unijena.bioinf.ms.frontend.subtools.gui.GuiAppOptions$Flow$2.compute(GuiAppOptions.java:142) at de.unijena.bioinf.ms.frontend.subtools.gui.GuiAppOptions$Flow$2.compute(GuiAppOptions.java:133) at de.unijena.bioinf.jjobs.BasicJJob.call(BasicJJob.java:117) at java.base/java.util.concurrent.FutureTask.run(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) at java.base/java.lang.Thread.run(Unknown Source)