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Fiji Is Just ImageJ!
Feb 06 2016 15:04 UTC
The problem was simple, as you pointed out, I didn't set up the plugins.dir. System.setProperty("plugins.dir", "/home/bnorthan/fiji/Fiji.app");
Even though that part of the solution was right in front of me, I didn't clue in. I guess I thought maven puts everything on the classpath, and Fiji can then find it all.
Which maven did do (I could load the class)... I guess Fiji needs a little more information to add the menus??
Feb 06 2016 16:59 UTC
It's a limitation of ImageJ1. Perhaps we could patch it to use the regular classpath too, to alleviate this issue.