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unexpected error when starting sirius #102

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AndreaCa96 opened this issue Feb 7, 2023 · 2 comments
Closed

unexpected error when starting sirius #102

AndreaCa96 opened this issue Feb 7, 2023 · 2 comments

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@AndreaCa96
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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
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mfleisch commented Feb 7, 2023

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.

@mfleisch mfleisch closed this as completed Feb 7, 2023
@AndreaCa96
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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)

mfleisch pushed a commit that referenced this issue Aug 2, 2024
…om-databases-on-the-old-mine-slots' into 'master'

Resolve "Fix database flag query for "ALL" to not include custom databases on the old MINE slots"

Closes #102

See merge request bright-giant/sirius/sirius-libs!64
mfleisch pushed a commit that referenced this issue Aug 2, 2024
…mono-repo' into 'master'

Resolve "Merge sirius-libs into sirius-frontend to create a mono repo."

Closes #300, #132, #126, #123, #128, #125, #127, #124, #122, #121, #120, #109, #115, #106, #99, #112, #111, #61, #110, #103, #108, #107, #104, #221, #102, #98, #198, #92, #94, #93, #85, #84, #87, #76, #56, #73, #32, #70, #65, #43, #63, #33, #53, #58, #59, #57, #54, #52, #41, #47, #50, #49, #48, #39, #46, #37, #38, #27, #34, #22, #31, #28, #18, #23, #21, #19, #9, #240, #280, #254, #242, #246, #238, #156, #25, #155, #189, #172, #154, #11, #6, #16, and #4

See merge request bright-giant/sirius/sirius-frontend!106
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