GitHub actions and styler suggestions #54
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lcolladotor
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May 9, 2020
Created both an introductory and a developer's notes vignette, updated README and docs with examples, added a second biocViews term, fixed some small bugs/typos. Related links (as many as I could remember): * https://rstd.io/tidytools19 * https://twitter.com/CVWickham * https://twitter.com/hadleywickham * https://www.rstudio.com/products/rstudio/download * https://comunidadbioinfo.github.io/post/building-tidy-tools-cdsb-runconf-2019/#.XrbLMxNKiu4 * http://bioconductor.org/ * https://lcolladotor.github.io/pkgs/ * https://stat.ethz.ch/pipermail/bioc-devel/2020-March/016365.html * https://www.bioconductor.org/help/docker/ * https://stat.ethz.ch/pipermail/bioc-devel/2020-April/016532.html * https://github.com/features/actions * https://stat.ethz.ch/pipermail/bioc-devel/2020-April/016650.html * r-lib/actions#84 * r-lib/usethis#1108 * r-lib/styler#636 * Bioconductor/BiocCheck#57 * Bioconductor/bioconductor.org#54 * http://bioconductor.org/developers/how-to/coding-style/ * https://style.tidyverse.org/ * https://twitter.com/lorenzwalthert * https://twitter.com/mt_morgan * https://docs.travis-ci.com/user/languages/r/ * r-lib/pkgdown#1206 * r-lib/pkgdown#1230 * https://twitter.com/jimhester_ * https://www.jimhester.com/talk/2020-rsc-github-actions/ * https://github.com/Bioconductor/BBS * https://github.com/Bioconductor/packagebuilder * https://www.appveyor.com/ * r-hub/rhub#52 * r-hub/rhub#38 * https://www.tidyverse.org/blog/2020/04/usethis-1-6-0/ * https://github.com/r-lib/actions/tree/master/examples * https://yihui.org/en/2018/03/second-pull-request/ * https://github.com/r-lib/actions/blob/master/examples/check-standard.yaml * https://help.github.com/en/actions * https://ropenscilabs.github.io/actions_sandbox/ * https://twitter.com/seandavis12 * https://github.com/seandavi/BiocActions/blob/master/.github/workflows/main.yml * https://twitter.com/CSoneson * https://github.com/csoneson/dreval/blob/master/.github/workflows/R-CMD-check.yaml * https://bioc-community.herokuapp.com/ * https://github.com/leekgroup/derfinderPlot/blob/master/.github/workflows/check-bioc.yml * https://github.com/LieberInstitute/recount3/blob/master/.github/workflows/check-bioc.yml * https://github.com/hpages * r-lib/actions#68 * r-lib/actions#85 * https://twitter.com/opencpu * https://community.rstudio.com/u/const-ae * https://community.rstudio.com/t/compiler-support-fo-c-14-features-on-windows/57284/4 * r-lib/xml2#296 * r-lib/xml2#302 * https://github.com/r-lib/usethis/blob/master/.github/workflows/R-CMD-check.yaml * https://github.com/r-lib/usethis/commits/master/.github/workflows/R-CMD-check.yaml * https://stat.ethz.ch/pipermail/bioc-devel/2020-April/016703.html * https://stat.ethz.ch/pipermail/bioc-devel/2020-April/thread.html * r-lib/remotes#296 * r-lib/actions#86 * r-lib/covr#427 * https://github.com/r-lib/actions/blob/master/examples/pr-commands.yaml * https://www.digitalocean.com/community/tutorials/how-to-install-git-on-ubuntu-18-04 * r-lib/actions#50 * actions/checkout#238 * https://github.com/rocker-org/rocker-versioned2/blob/master/dockerfiles/Dockerfile_rstudio_4.0.0-ubuntu18.04 * https://twitter.com/niteshturaga * https://twitter.com/cboettig * rocker-org/rocker-versioned#208 * https://github.community/t5/GitHub-Actions/bd-p/actions * https://www.r-consortium.org/blog/2020/03/18/cdsb-diversity-and-outreach-hotspot-in-mexico * https://github.com/maxheld83 * r-lib/actions#87 * https://github.com/yutannihilation
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Hi,
Based on my recent work for r-lib/actions#84, I want to make a few small PRs to the BioC website. The feasibility of the PRs for the Bioc website also depend on r-lib/usethis#1108, r-lib/styler#636 and Bioconductor/BiocCheck#57.
Assuming things go well with
r-lib/actions,r-lib/usethis,r-lib/stylerandBioconductor/BiocCheck, I think that it would be useful to add a help page like https://www.bioconductor.org/help/docker/ to the Bioconductor website that illustrates how you can setup a GitHub action workflow like https://github.com/leekgroup/derfinderPlot/blob/master/.github/workflows/check-bioc.yml on your package. So one PR would involve adding such a file.The other PR would be related to
stylerand is directly related to Bioconductor/BiocCheck#57. It would involve editing http://www.bioconductor.org/developers/how-to/coding-style/ to mentionstyler.Best,
Leo
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