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

[Thomas Dybdal Pedersen]

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…

best

Thomas


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
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