Pavane,

The best thing to do is to try your programme with Wine. If it works, then great. If not, then you need to decide whether you want to devote the effort to making it work in Linux using Wine.

The two programs I use under Wine both use the midi mapper to output midi. If you do, I would imagine it should work. There may be other issues, though.

If you get it working properly with Wine, then my guess is that it should still work OK with Windows.

As a thought, I was checking out Picasa the other day and they have a Linux version. When I looked into it, all they have done is to bundle the Windows version with Wine so they really only need to maintain one version to work on both Windows and Linux. They have also added a script to put the program launcher into the regular Linux application menu on the desktop so you don't have to go searching in the Wine menu for it.