Fix non-functional Fiji after Update
short URLFrom Fiji
Unfortunately, there was a bug in Fiji's updater that affected the update of the Fiji launcher itself. If you have not used the updater in quite some time, then you might hit this bug.
The symptom is a non-functional Fiji after the update (the symbol jumps once, but no Fiji window opens).
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Automatic fix
Download and launch the Java app to fix it. See below for an explanation what it does, or inspect the source code in gitweb
Manual fix
If the automatic fix does not work for you, you need to perform the fix manually.
MacOSX-specific
First, go to the Finder:
In Finder's Go menu, select Utilities:
Once you are there, double-click on the Terminal icon:
A command line window will open. Now you need to remember where you installed Fiji. This is typically /Applications/Fiji.app/ if you have administrative privileges, and Desktop/Fiji.app if you don't.
The first command (cd /Applications/Fiji.app/ or cd Desktop/Fiji.app/) will change the current working directory of the Terminal to the Fiji directory, and the second command (chmod a+x Contents/MacOS/*) will fix the executable permissions that were not set by the buggy updater.
update/ directory issue
For a short time on Oct 11, 2010, there was an issue in the updating system which affected all platforms. There was a fix on the same day, but those who were hit by the bug have no functional Fiji, and therefore an automatic update which would fix it is not possible.
The issue goes away when deleting the update/ directory in the Fiji.app/ directory (on MacOSX, you can just type rm -rf update in the Terminal, or Ctrl+click on the Fiji icon in the finder and select Show package contents to see the update/ directory) and restarting Fiji. You might want to run Help>Update Fiji after that to fix things for good.
