[Biojava-l] why can't biojava fold RNA?

[Daniel Quest]

I don't quite think this answers the question.  

If you want to execute c/c++/fortran/legacy code from java, you can do a system exec from within java.  Or you can play around with jni but my experiences with that have not been good

Does biojava have the ability to execute a stand alone program?  If not I have some code lying around you guys can have

Daniel

Sent from my iPod

On Sep 20, 2011, at 11:11 AM, Andreas Prlic <andreas at sdsc.edu> wrote:

> If all your code is in Java and you have binaries for some external
> software you can easily wrap it from Java and trigger the execution.
> 
> Andreas
> 
> On Tue, Sep 20, 2011 at 2:09 AM, quan zou <guoer713108 at gmail.com> wrote:
>> Thanks, however, there is no java code. it cannot be imported into my java
>> project.
>> 
>> 2011/9/20 Andreas Prlic <andreas at sdsc.edu>
>>> 
>>> Hi Quan,
>>> 
>>> the Vienna RNA package is available as open source.  Did you take a look
>>> at it?
>>> 
>>> Andreas
>>> 
>>> 
>>> On Mon, Sep 19, 2011 at 9:18 PM, quan zou <guoer713108 at gmail.com> wrote:
>>>> Dear all,
>>>> 
>>>>        Is there any java program or jar which can fold a RNA sequence to
>>>> a
>>>> secondary structure? Such as RNAfold?
>>>> 
>>>>       Why RNAfold/ Vienna Package have not been contained in Biojava?
>>>> 
>>>>                 Quan
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>> 
>> 
> 
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