Thank you all for your suggestions! Can anyone from the Bioconductor team comment on whether David's approach to use the .Rbuildignore file is valid for submission to Bioconductor? Obviously, this will would the least work so if possible, I would like to use this.
Kind regards, Alan. ________________________________ From: David Jimenez-Morales <biodavi...@gmail.com> Sent: 06 April 2021 17:53 To: Andris Jankevics <a.jankev...@bham.ac.uk> Cc: Murphy, Alan E <a.mur...@imperial.ac.uk>; bioc-devel@r-project.org <bioc-devel@r-project.org> Subject: Re: [Bioc-devel] Best practice use pkgdown, docker with Bioconductor This email from biodavi...@gmail.com originates from outside Imperial. Do not click on links and attachments unless you recognise the sender. If you trust the sender, add them to your safe senders list<https://spam.ic.ac.uk/SpamConsole/Senders.aspx> to disable email stamping for this address. 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.jankev...@bham.ac.uk<mailto:a.jankev...@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-boun...@r-project.org<mailto:bioc-devel-boun...@r-project.org>> On Behalf Of Murphy, Alan E Sent: 06 April 2021 16:24 To: bioc-devel@r-project.org<mailto:bioc-devel@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 [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org<mailto:Bioc-devel@r-project.org> mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel _______________________________________________ Bioc-devel@r-project.org<mailto:Bioc-devel@r-project.org> mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
