[Bioc-devel] How to integrate code from a package not available on bioconductor

[Wolfgang Huber]

> Il giorno 10feb2021, alle ore 14:31, Kern, Lori <Lori.Shepherd using RoswellPark.org> ha scritto:
> 
> Have you reached out to the maintainer of the github package to see if they would plan on submitting to CRAN or Bioconductor?
> If they do not,  you could see if they are okay with you including the code in your package and then clearly indicate their authorship in the man pages and by giving contributor credit in the DESCRIPTION. They might also include CITATION information in their package to include?
> 
> Others might have additional thoughts?

Ana, 

if you are in a position to take that other code “as is” and then assume maintainership over it, this may be a way forward. However, consider these issues in advance:
- What happens if these other authors change their code on GitHub? Will you also synchronize the copy in your own package, or leave it as is? This requires a process and potentially continuous resources. 
- Who is responsible for fixing bugs in that copied code? 
- There are many reasons why people might not put their code on CRAN and Bioconductor, but in case it is a sign of low confidence in the quality of the code or low commitment to maintain it, depending on it incurs additional technical debt for you.

Are there maybe other packages (on CRAN/Bioconductor) that provide what you need?

	Kind regards
		Wolfgang


> 
> Cheers,
> 
> 
> Lori Shepherd
> 
> Bioconductor Core Team
> 
> Roswell Park Comprehensive Cancer Center
> 
> Department of Biostatistics & Bioinformatics
> 
> Elm & Carlton Streets
> 
> Buffalo, New York 14263
> 
> ________________________________
> From: Bioc-devel <bioc-devel-bounces using r-project.org> on behalf of Ana Carolina Leote <anacarolinaleote using gmail.com>
> Sent: Wednesday, February 10, 2021 5:14 AM
> To: bioc-devel using r-project.org <bioc-devel using r-project.org>
> Subject: [Bioc-devel] How to integrate code from a package not available on bioconductor
> 
> Dear all,
> 
> I am a package maintainer and would like to add a functionality that
> depends on another package which is not available in bioconductor, only via
> GitHub. I would like to make the necessary changes in order to be able to
> use their code in my package. Can anyone point me towards the best way to
> proceed without undermining the authorship of the original developers? Is
> copying their code to my package and editing it to bioconductor standards
> appropriate?
> 
> Thank you and best wishes,
> Carolina
> 
> *Ana Carolina Leote*
> *MSc. Biological Engineering*
> *PhD student at the Cologne Graduate School for Ageing Research*
> *Cellular networks and systems biology (Beyer group), **CECAD Research
> Center*
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