On Tue, Apr 4, 2023 at 2:44 AM Oleksii Nikolaienko <oleksii.nikolaie...@gmail.com> wrote: > > Hi, > maybe because BiocStyle is not listed as a dependency or suggested package > in DESCRIPTION? > More info here: https://github.com/Bioconductor/BBS/issues/248
Yes, this is why. The package needs 'BiocStyle' to build the vignette, and therefore it needs to be declared. Some other packages forgot to declare 'RUnit' needed for the unit tests. We'll also see packages that rely on non-declared annotation packages. These new checks were introduced for Bioc devel(*) checks and aligns with how this already works on CRAN since a long time. (*) I'm not 100% sure, but I believe the reason you only see it on the Linux server is that that's the only one that runs 'R CMD check' on vignettes. Checking vignettes takes time, so the decision was to do that only one platform. Since 'BiocStyle' is only involved for vignettes, this is why that particular package gets flagged only there. Packages that forgot to add 'RUnit' to suggests, will get an error on all platforms. Adding 'BiocStyle' to Suggests: in the package DESCRIPTION file solves this problem. /Henrik > > Best, > Oleksii > > On Tue, 4 Apr 2023 at 11:22, Rainer Johannes <johannes.rai...@eurac.edu> > wrote: > > > Dear all, > > > > I'm continuing to see some strange dependency problems for packages on the > > linux build system for Bioconductor 3.17. First time I've seen them where > > on the build report for snapshot 2023-03-31, and they are still there for > > snapshot date 2023-04-02 (build report from 2023-04-03). What I've seen so > > far is that most are related to `BiocStyle` missing. > > > > Some examples are: > > - ROC (missing BiocStyle) > > - SCATE (missing BiocStyle) > > - SC3 (missing BiocStyle) > > - scTHI (missing BiocStyle) > > > > Since they are only present on the linux build system - maybe that's > > something related to the setup on that particular server? Or the R version > > used there does not properly get all dependencies of packages? > > > > cheers, jo > > > > --- > > Johannes Rainer, PhD > > > > Eurac Research > > Institute for Biomedicine > > Via A.-Volta 21, I-39100 Bolzano, Italy > > > > email: johannes.rai...@eurac.edu > > github: jorainer > > mastodon: jorai...@fosstodon.org > > > > > > [[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 _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
