Learn how easy it is to sync an existing GitHub or Google Code repo to a SourceForge project! See Demo
On a window7 computer with Java Version 7 Update 25, Apollo will not run unless opened under the "run as administrator" option is selected a does not seem able to open GFF3 formatted files.
Did you try the suggestions here: http://apollo.berkeleybop.org/current/install.html#windows
Specifically, did you try what's described in the note for when you are having problems running Apollo from the installer?