Hi Amr, The following has been mentioned in the project description: "Converting C or C++ source code by hand is not a trivial undertaking and it is recommended that a C/C++ to Java conversion tool be used to do as much of the work as possible. It is also an option to consider a JNI approach for integrating these applications into Java."
I am a bit confused. Kindly tell me what exactly has to be done in the project. Thanks, Komal On Sun, Mar 18, 2012 at 9:35 AM, Amr AL-Hossary <[email protected]>wrote: > Dear Komal, > > As far as I know, The project is about porting the code to Java, not using > existing C code within JNI. > That means you should be able to digest the algorithm first, Build it > using Java from scratch, depending on C code as a reference Implementation. > > Regards > > Amr > > -----Original Message----- > From: Komal Sanjeev > Sent: Sunday, March 18, 2012 12:59 AM > To: Andreas Prlic ; [email protected] > Subject: Re: [Biojava-l] Interested in working with BioJava for GSoC 2012 > > Hi all, > > Introducing myself a bit more, I also work as a remote intern for > DARNED<http://darned.ucc.ie/>. > DARNED is a database of RNA Editing, and currently new features are being > added into the project, one of which is incorporating the BLAST feature for > sequence based search. Having worked on a similar project recently, I think > I will be comfortable working with the 'Porting an Algorithm to Java' > project. > > The following is what I understood about the project. Please correct me if > I am wrong. > This(link) <http://biojava.org/wiki/BioJava:CookBook3:NCBIQBlastService> > is > the current method used for BLAST, which accesses the NCBI website each > time. The NCBIQBlastService class is currently used. The project aims at > replacing this with code which will perform the search within Biojava. I > downloaded the source codes of BLAST and HMMER. My job will be to convert > these to Java. > > Regarding the C/C++ to Java converter, i found this on the internet: > > http://tangiblesoftwaresolutions.com/Product_Details/CPlusPlus_to_Java_Converter_Details.html > > but it is not free of cost. > Apart from this, I saw that many people discourage the use of C/C++ to Java > tools saying that they are not efficient. Does anyone know of any better > tool which can do this? > > Regarding the JNI, would it not be better if the whole code was written in > Java, rather than a part of it being in C/C++? I haven't used it before, > but if it is better than converting the code, I don't have a problem > working with it. > > Kindly clear my doubts. > Thanks in advance, > Komal > > > > On Thu, Mar 15, 2012 at 1:17 AM, Andreas Prlic <[email protected]> wrote: > > > Hi Komal, > > > > stay tuned to this list, we still don't know if we will get funded > > from Google this year. > > > > Andreas > > > > > > On Wed, Mar 14, 2012 at 12:27 PM, Komal Sanjeev > > <[email protected]> wrote: > > > Hi Everyone, > > > > > > I am Komal, an undergraduate student from IT-BHU, India. I'm interested > > in > > > working with BioJava for GSoC 2012. I am particularly interested in > > working > > > on the 'Porting an Algorithm to Java' project. > > > Kindly help me about how I should proceed. > > > > > > Thanks, > > > Komal > > > _______________________________________________ > > > 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
