Hi Stevie, It might be helpful to link to the workflow runs so people can see exactly what you're doing and what's happening. Hopefully I'm looking in the right place at https://github.com/steveped/ngsReports/actions/runs
I'm not sure about the error message regarding BiocCheck. However there are couple of things I noticed in your workflow files for the most recent failures, which might help: In the devel workflow ( https://github.com/steveped/ngsReports/actions/runs/3425103022/) I'm pretty sure r-lib/actions/setup-r has to be given the version 'devel'. Using 4.3 won't work because there isn't a URL for R with that version until it becomes the latest release. In the latest release workflow run: - At line 54 ( https://github.com/steveped/ngsReports/actions/runs/3426634604/workflow#L54) you using the RSPM for Ubuntu Focal and - At line 118 ( https://github.com/steveped/ngsReports/actions/runs/3426634604/workflow#L118) you're calling 'remotes::system_requirements("ubuntu", "20.04"))' but the docker containers are actually built on Ubuntu 22.04, which is Ubuntu Jammy. I suspect that's the reason you're getting the libicui18n.so.66 error, because the binary packages you're installing are for a different version of Ubuntu. Also, this might not simplify your workflow too much, but you could try my setup-bioc action ( https://github.com/grimbough/bioc-actions/tree/v1-branch/setup-bioc) which tries to make keeping R and Bioconductor versions in sync a bit easier. Cheers, Mike On Wed, 9 Nov 2022 at 04:43, Stevie Pederson <stephen.pederson...@gmail.com> wrote: > Hi, > > I also can't get my github actions bioc-check workflow running for devel, > so I checked the bioc-devel docker image & can't seem to install BiocCheck > on that container. Is this likely to be available for devel soon? Error > from my local installation of the container below: > > BiocManager::install("BiocCheck") > 'getOption("repos")' replaces Bioconductor standard repositories, see > '?repositories' for details > > replacement repositories: > CRAN: https://cloud.r-project.org > > Bioconductor version 3.17 (BiocManager 1.30.19), R Under development > (unstable) (2022-11-07 r83308) > Installing package(s) 'BiocCheck' > Warning message: > package ‘BiocCheck’ is not available for Bioconductor version '3.17' > > A version of this package for your version of R might be available > elsewhere, > see the ideas at > > https://cran.r-project.org/doc/manuals/r-devel/R-admin.html#Installing-packages > > [[alternative HTML version deleted]] > > _______________________________________________ > 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
