Re: [R-pkg-devel] Bioconductor reverse dependency checks for a CRAN package

Thank you Georgi Boshnakov, Ben Bolker, and Diego Hernangómez Herrero for introducing me to `revdepcheck`! On Tue, 30 Jan 2024 12:38:57 -0500 Ben Bolker wrote: > I have had a few issues with it > but overall it's > been very helpful. Indeed

Re: [R-pkg-devel] Bioconductor reverse dependency checks for a CRAN package

On Tue, 30 Jan 2024 16:24:40 + Martin Morgan wrote: > BiocManager (the recommended way to install Bioconductor packages) at > the end of the day does essentially install.packages(repos = > BiocManager::repositories()), ensuring that the right versions of > Bioconductor packages are installed

Re: [R-pkg-devel] Bioconductor reverse dependency checks for a CRAN package

Dear Dirk, Thank you very much for your help here and over on GitHub! I have finally managed to get the reverse dependency checks working. It took some additional disk space and a few more system dependencies. If not for r2u, I would have been stuck for much longer. I really appreciate the work

Re: [R-pkg-devel] Bioconductor reverse dependency checks for a CRAN package

For the BioC installation: For all CAN work, I simply use install.packages() after adding/setting the BioC repo/mirror which perfectly well resolves the dependencies. Best, Uwe Ligges On 30.01.2024 16:56, Ivan Krylov via R-package-devel wrote: Hello R-package-devel, What would you

Re: [R-pkg-devel] Bioconductor reverse dependency checks for a CRAN package

Haven’t tried with a package with such an amount of revdeps, but my approach is revdepcheck in GH actions and commiting the result to the repo (that is somehow similar to the docker approach if you host the package in GitHub). You can check the setup in tidyterra: - folder with basic setup:

Re: [R-pkg-devel] Bioconductor reverse dependency checks for a CRAN package

https://github.com/r-lib/revdepcheck does the 'step 3 twice' part. I have had a few issues with it but overall it's been very helpful. https://github.com/HenrikBengtsson/revdepcheck.extras may also be useful. On 2024-01-30 10:56 a.m.,

Re: [R-pkg-devel] Bioconductor reverse dependency checks for a CRAN package

From: R-package-devel on behalf of Ivan Krylov via R-package-devel Sent: 30 January 2024 15:56 To: r-package-devel@r-project.org Subject: [R-pkg-devel] Bioconductor reverse dependency checks for a CRAN package Hello R-package-devel, What would you recommend

Re: [R-pkg-devel] Bioconductor reverse dependency checks for a CRAN package

Ivan, On 30 January 2024 at 18:56, Ivan Krylov via R-package-devel wrote: | Hello R-package-devel, | | What would you recommend in order to run reverse dependency checks for | a package with 182 direct strong dependencies from CRAN and 66 from | Bioconductor (plus 3 more from annotations and

Re: [R-pkg-devel] Bioconductor reverse dependency checks for a CRAN package

on behalf of Ivan Krylov via R-package-devel Date: Tuesday, January 30, 2024 at 10:57 AM To: r-package-devel@r-project.org Subject: [R-pkg-devel] Bioconductor reverse dependency checks for a CRAN package Hello R-package-devel, What would you recommend in order to run reverse dependency checks

[R-pkg-devel] Bioconductor reverse dependency checks for a CRAN package

Hello R-package-devel, What would you recommend in order to run reverse dependency checks for a package with 182 direct strong dependencies from CRAN and 66 from Bioconductor (plus 3 more from annotations and experiments)? Without extra environment variables, R CMD check requires the Suggested