[Bioc-devel] Size limits of packages when including other executables

Thomas Dybdal Pedersen thomasp85 at gmail.com
Mon Jun 10 08:56:21 CEST 2013

Most of the content of the jar-archive is model parameters, so the actual classes doesn't take up much space. Thanks for the pointer to the licensing issue - will make sure that everything is sorted out…



Den 07/06/2013 kl. 22.50 skrev Dan Tenenbaum <dtenenba at fhcrc.org>:

> On Thu, Jun 6, 2013 at 1:48 AM, Thomas Dybdal Pedersen
> <thomasp85 at gmail.com> wrote:
>> Hi
>> I'm developing a wrapper for the peptide-identification tool MS GF+. The algorithm is developed in Java and the .jar file has a size around 20 mb.
>> For the ease of the user, I think it would make sense to pack the java code together with the wrapper (this has been cleared with the MS GF+ developer), and would have the added benefit of securing version compatibility. This, on the other hand, stretches the size limits imposed in the guidelines by several factors…
>> What is the opinion on this? Is the size limits set in stone or can they be lifted for certain cases besides annotation packages?
> We generally do frown on this, you're right, but if you're sure all
> the classes in the JAR are necessary, then we'll allow it.
> What's more important than getting buy-in from the developer of the
> Java code is finding out what license the Java code is written under,
> making sure that is compatible with the license of the R package, and
> acknowledging the Java license as well as the R license in your
> package. See the licensing section of the "Writing R Extensions"
> manual for more information. Note that some licenses require that all
> source code be either in the package, or that a link be provided that
> points to it; this would apply to your jar file (which presumably
> contains only .class files and no Java source).
> Dan
>> best
>> Thomas Pedersen, PhD student at DTU, Denmark
>> _______________________________________________
>> Bioc-devel at r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/bioc-devel

More information about the Bioc-devel mailing list