Re: [R] Installing bioconduction packages in connection with loading an R package

2020-10-12 Thread Martin Morgan
An alternative to setRepositories() is use of (the CRAN package) BiocManager::install("gRbase") instead of install.packages(). BiocManager installs CRAN packages as well as Bioconductor packages. Another, more transparent, solution is to use install.packages("gRbase", repos = BiocManager::rep

Re: [R] Installing bioconduction packages in connection with loading an R package

2020-10-11 Thread Bert Gunter
You would do better posting this on r-package-devel rather than here, I believe. Bert Gunter "The trouble with having an open mind is that people keep coming along and sticking things into it." -- Opus (aka Berkeley Breathed in his "Bloom County" comic strip ) On Sun, Oct 11, 2020 at 11:51 AM S

Re: [R] Installing bioconduction packages in connection with loading an R package

2020-10-11 Thread Jeff Newmiller
This sounds like your package belongs in the bioconductor repository rather than in CRAN. Referencing bioc packages only in Suggests might make it appropriate for CRAN. On October 11, 2020 11:51:29 AM PDT, "Søren Højsgaard" wrote: >Dear all, > >My gRbase package imports functionality from the

[R] Installing bioconduction packages in connection with loading an R package

2020-10-11 Thread Søren Højsgaard
Dear all, My gRbase package imports functionality from the bioconductor packages graph, Rgraphviz and RBGL. To make installation of gRbase easy, I would like to have these bioconductor packages installed in connection with installation of gRbase, but to do so the user must use setRepositories(