You might try JNA instead of JNI. It's easier to use. However, I'd be reticent about calling it frequently in a loop, as there is some overhead involved.
Mark On Tue, Sep 20, 2011 at 6:14 PM, Daniel Quest <[email protected]>wrote: > 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 <[email protected]> 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 <[email protected]> wrote: > >> Thanks, however, there is no java code. it cannot be imported into my > java > >> project. > >> > >> 2011/9/20 Andreas Prlic <[email protected]> > >>> > >>> 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 <[email protected]> > 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 > >>>> _______________________________________________ > >>>> Biojava-l mailing list - [email protected] > >>>> http://lists.open-bio.org/mailman/listinfo/biojava-l > >>>> > >> > >> > > > > _______________________________________________ > > Biojava-l mailing list - [email protected] > > http://lists.open-bio.org/mailman/listinfo/biojava-l > > _______________________________________________ > Biojava-l mailing list - [email protected] > http://lists.open-bio.org/mailman/listinfo/biojava-l > _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l
