search

fiji / Kappa

A Fiji plugin for Curvature Analysis
MIT License
7 stars 1 forks source link

Problems with Kappa after update #6

Closed myavitt closed 3 years ago

myavitt commented 3 years ago

Hello,

I used Kappa maybe ~6 months ago and it worked great. However, I recently updated Fiji and was unable to find Kappa in the Plugins --> Analyze menu. When I follow the instructions to install in the README file (Update --> Manage update sites), Kappa is checked, but does still not show up. Do you have any advice to troubleshoot this problem?

Thanks.

amartin7211 commented 3 years ago

I am also having this problem

Batir1988 commented 3 years ago

Me too....not able to find it even after reinstalling Fiji

hadim commented 3 years ago

Indeed I don't know what happened during the last automatic update. I just tried to upload manually the 2.0.0 version using https://imagej.net/How_to_set_up_and_populate_an_update_site but ImageJ does not let me upload the Kappa jar file. In the details I can read This file is no longer needed.

@ctrueden do you have an idea? I guess something went wrong with the update site and I don't think I can fix it myself.

hadim commented 3 years ago

Maven repo has also not been updated for a while now: https://maven.scijava.org/#nexus-search;quick~kappa

hadim commented 3 years ago

@Batir1988 @amartin7211 sorry again for the trouble, here is a link to the JAR file: https://drive.google.com/file/d/1W9ncjzNr8HVk6lcFbiomBTzClQrZ-ttJ/view?usp=sharing

The file is called Kappa-2.0.0.jar after adding it to Fiji.app/jars you can restart Fiji and then it should work as excepted.

Also, next time you have such an issue you should report it on the forum instead of Github, you'll get a faster answer there: https://forum.image.sc/

imagejan commented 3 years ago

Indeed, Kappa-2.0.0 failed to be deployed to the maven repository, because apparently the required environment variables are missing since the move to the fiji org.

See the build log:

== Configuring Maven ==

No deploy -- secure environment variables not available

That should be independent of the update site though.

In the details I can read This file is no longer needed.

@hadim can you try uploading it again by explicitly marking it for upload?

EDIT: I figured that this might be intended, as Kappa is supposed to be included in Fiji now, so shipping via the Java-8 update site instead of its own update site. Something might have gone wrong with uploading it to the Java-8 update site, though...

hadim commented 3 years ago

I figured that this might be intended, as Kappa is supposed to be included in Fiji now, so shipping via the Java-8 update site instead of its own update site. Something might have gone wrong with uploading it to the Java-8 update site, though...

I haven't realized that was going to be integrated into Fiji directly. This is great news!

imagejan commented 3 years ago

Well, that was just a guess, seeing the commit message of that recent commit by @ctrueden: https://github.com/fiji/Kappa/commit/cfe7cd0e6a534944ab8261f56f13cd3f98102f10

I guess what's needed to finalize integration into Fiji is an update to the pom.xml in fiji/fiji.

Until then, I fixed the maven deployment by re-running travisify.sh on this repository, so that sc.fiji:Kappa is now correctly deployed to maven.scijava.org:

https://maven.scijava.org/#nexus-search;gav~sc.fiji~Kappa~~~

hadim commented 3 years ago

Thank you @imagejan for doing this.

@Batir1988 @amartin7211 : you can now use the following link https://maven.scijava.org/service/local/artifact/maven/redirect?r=snapshots&g=sc.fiji&a=Kappa&v=2.0.1-SNAPSHOT&e=jar

imagejan commented 3 years ago

Kappa-2.0.0.jar is now part of Fiji (no need to activate an extra update site), so I'm closing this issue.