A simple way to run an external program is via ProcessBuilder (since Java 1.5)
http://download.oracle.com/javase/1.5.0/docs/api/java/lang/ProcessBuilder.html Andreas 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
