Hi Marco, apologies for the delay in replying.
It is possible to manually create a shortcut. To do so, you will need to
find the javaw.exe executable that comes with your Java installation.
Create a shortcut to javaw (you can do this from the right-click context
menu in windows 7, not sure about 8). Then open the properties of the
shortcut (another right click) and in the "Target" entry box, after the
path to javaw.exe in quotes, add the rest of the VM parameters. For
example:
-jar -Xmx1000m Mauve.jar
Then in the "Start in:" field, enter the directory where Mauve was
installed, the same directory where you found Mauve.jar. Now you should
be able to move the shortcut wherever is convenient and it will launch
the GUI with 1000 Mb of allocated RAM.

Best,
-Aaron

On Tue, 2014-08-19 at 14:46 -0400, Marco A. Riojas wrote:
> Hi, I'm trying to use Mauve 2.3.1.  I ran the installation file, which
> created the Mauve 2.3.1 folder in the Start Menu.  However, the folder
> is empty.  Since double-clicking the Mauve.jar file doesn't set the
> memory requirements appropriately, I can't run the application.  Is
> there a way I can manually create a shortcut that initializes the
> parameters properly?  Thanks!
> 
> 
> Cheers,
> 
> 
> Marco
> 
> 
> 
> 
> Marco A. Riojas
> Lead Biologist, Collections/R&D
> Biodefense & Emerging Infections
> American Type Culture Collection (ATCC)
> mrio...@alum.mit.edu
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