[Bioc-devel] Best practice use pkgdown, docker with Bioconductor

[David Jimenez-Morales]

Hi there,

What about including the "_pkgdown.yml" file in the ".Rbuildignore" file?
Would this somehow help "avoiding any issues with these external
configurations and Bioconductor"?

Thanks
David

On Tue, Apr 6, 2021 at 5:05 AM Andris Jankevics <A.Jankevics using bham.ac.uk>
wrote:

> Haven't used this, but I think you could use Github Action to merge master
> branch in the branch for pkgdown whenever changes on master are made.
>
> https://github.com/marketplace/actions/merge-branch
>
> BW,
> Andris
>
> -----Original Message-----
> From: Bioc-devel <bioc-devel-bounces using r-project.org> On Behalf Of Murphy,
> Alan E
> Sent: 06 April 2021 16:24
> To: bioc-devel using r-project.org
> Subject: [Bioc-devel] Best practice use pkgdown, docker with Bioconductor
>
> Hi all,
>
> I'm working on the development of (EWCE)[
> https://github.com/NathanSkene/EWCE] and have a question regarding a
> reviewer note. My package currently uses pkgdown to create a website
> through the master branch. I also create and push a new docker image from
> the main branch when the package successfully builds on travis.
>
> My reviewer has asked to remove the related files
> _pkgdown.yml,Dockerfileanddocker_push from my master branch to avoid any
> issues with these external configurations and Bioconductor. My reviewer has
> suggested to put these in another branch. It's not clear to me how best to
> do this? Ideally, if they are in a separate branch, is there a way to run
> them once there is an update and successful build on the master branch? If
> this isn't possible, is there a way to avoid manually duplicating new
> changes in the master branch in this separate branch and instead, just push
> the changes from master to this separate branch and trigger pkgdown and
> docker build that way? Sorry, I realise this last part more so relates to
> github commands but I was thinking someone else has probably already foudn
> a way around this issue.
>
> Kind regards,
> Alan.
>
> Alan Murphy
> Bioinformatician
> Neurogenomics lab
> UK Dementia Research Institute
> Imperial College London
>
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