To answer one of my own questions:
NCBI is packaging their genome downloads as .gbff files. Mauve doesn't
like the extension so you have to change them to .gb or .gbk as stated
*four years ago* by Aaron at:
https://www.mail-archive.com/mauve-users@lists.sourceforge.net/msg00147.html
Apologies
Hi everyone. Sorry if this has been asked before, but I can't seem to
install the snapshot using the mauve_installer_20120303.exe: error given
is "Could not detect a suitable 64-it Java Runtime environment. Mauve
requires Java version 1.4 or later..."
I'm running JRE 6 for 64-bit and also have