Just speaking to someone from CS, and they directed me to Protoge: 
http://protege.stanford.edu/download/protege/3.4/full/
This is also developed in Manchester (by Mat Horridge and Nick Drummond) 
and has overcome this hurdle by providing a bundle with java and without 
java.
It has also gotten rid of the Bat file problem, so the user only ever 
clicks on .exe files (for windows).

Is there a reason why is the bat file thing still there?
I'd much prefer to see my erros captured in the gui, and get rid of the 
unnecessary bat file window.

regards,
Paul.


Stian Soiland-Reyes wrote:
> On Thu, Jun 11, 2009 at 08:50, Stian
> Soiland-Reyes<[email protected]> wrote:
>
>   
>> It is however Windows users that have the biggest issue of not having
>> Java by default.
>>     
>
> As a summary for newcomers to the thread - the question is how do you
> make installation and first start-up of Taverna work, even if the user
> don't have Java installed on their machine.
>
> In Windows what happens now if you don't have Java is that you click
> run.bat - a black window appears, and after less than a second it
> closes again - not very helpful, unfortunately.
>
>
> Our main challenge is that as Taverna is a Java program, we can't just
> "pop up a window if Java is missing" before we are up and running in
> Java.
>
> You could crudely put PAUSE and ECHO and something in the .BAT file so
> that it doesn't just exit, with some kind of line saying 'You don't
> seem to have Java installed - see http://blablabla' - but it's not
> very user friendly (but still an improvement!) - for example the user
> can't click on the link in the console window.
>
> You could execute a visual basic script that can pop up a dialogue
> window and stuff - I guess all recent Windowses comes with Visual
> Basic installed now.
>
>
> There are also startup wrapper tools like Launch4J Richard is
> mentioning for Windows, which is a standard Windows binary that can
> detect if Java is installed or not, and then direct the user to an
> appropriate download site.
>
>
>
> For Linux I'm not quite sure what is appropriate, currently we use a
> shell script, but as Linux is becoming more user-friendly less people
> are used to digg down in a Terminal to start applications. Also some
> distributions like Ubuntu, come with Java, but it's a .. how can I put
> it nicely..  incomplete implementation.  The users would still need to
> install Sun Java 5 or 6 to run Taverna successfully.
>
>
> Our plan is to release Taverna 2.1 beta 2 in a few weeks time, which
> functionally will be quite similar to beta 1, but with an appropriate
> installation procedure for Windows and downloads for different
> platforms, including an application bundle for OS X.
>
>
>   


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