Andrew, I think if you want to include a Bioconductor dependency, then I think you add the "biocViews:" line to your description file to enable bioconductor package installation.
See this answer on Bioinformatics stackexchange: https://bioinformatics.stackexchange.com/a/3375/51 Hope that helps! -Robert On Tue, Apr 6, 2021 at 1:14 PM Andrew Dhawan <adha...@qmed.ca> wrote: > Thank you both very kindly - I have addressed both notes. I am still > wondering though about the RankProd dependency error - any insight into > this? > > Thanks! > Andrew > > On Tue, Apr 6, 2021 at 11:58 AM Uwe Ligges < > lig...@statistik.tu-dortmund.de> > wrote: > > > > > > > On 06.04.2021 17:39, Patrick Giraudoux wrote: > > > I had a similar problem with intepreting "notes" in pgirmess checks. > > > Some are lethal and lead to rejection and some not (just informative > > > comments). Fortunately Uwe has been kind enough to tell me what I > missed > > > (I thought that all notes were just "informative"). > > > Would it be possible to call lethal notes "errors" to keep us aware > that > > > we must really do something with them and fix what is actually a > problem? > > > > These are Notes as it may not be a serious issue or may be a false > > positive, nevertheless, we like to get clean packages to CRAN. > > > > WARNINGs and ERRORs will never be accepted. > > > > The policies clearly say that significant Notes have to be addressed. > > The only Note that is always acceptable is the CRAN maintainer Note > > about the package maintainer's address. All other Notes should be fixed > > generally or need manual attention in case of the really very few > > exceptions. > > > > Best, > > Uwe Ligges > > > > > > > > > > > Best, > > > Patrick > > > > > > > > > Le 06/04/2021 à 17:33, Uwe Ligges a écrit : > > >> Two Notes: > > >> > > >> > > >> Found the following (possibly) invalid URLs: > > >> URL: http://imagemagick.org/script/download.php (moved to > > >> https://imagemagick.org/script/download.php) > > >> From: inst/doc/vignette.html > > >> Status: 200 > > >> Message: OK > > >> > > >> > > >> Please change http --> https, add trailing slashes, or follow moved > > >> content as appropriate. > > >> > > >> * checking LazyData ... NOTE > > >> 'LazyData' is specified without a 'data' directory > > >> > > >> Simply omit the field if you have no data. > > >> > > >> Best, > > >> Uwe Ligges > > >> > > >> > > >> > > >> On 06.04.2021 16:27, Andrew Dhawan wrote: > > >>> Dear all, > > >>> > > >>> I am a bit puzzled by this error for the sigQC package being uploaded > > to > > >>> CRAN. Checks on my end pass without issue. There is one error > > >>> regarding the > > >>> bioConductor dependency RankProd that comes up only on the Debian OS > > >>> when > > >>> checking. See here for further details: > > >>> > > > https://win-builder.r-project.org/incoming_pretest/sigQC_0.1.22_20210406_110708/ > > >>> > > >>> > > >>> I am not sure how to resolve this - it seems to me that the > dependency > > >>> *should* be available across platforms, and short of removing the > > >>> dependency (which we rely on a fair bit), I'm not sure what we can > do. > > >>> > > >>> Any thoughts or suggestions would be massively appreciated. > > >>> > > >>> Thank you so kindly! > > >>> Andrew > > >>> > > >>> [[alternative HTML version deleted]] > > >>> > > >>> ______________________________________________ > > >>> R-package-devel@r-project.org mailing list > > >>> https://stat.ethz.ch/mailman/listinfo/r-package-devel > > >>> > > >> > > >> ______________________________________________ > > >> R-package-devel@r-project.org mailing list > > >> https://stat.ethz.ch/mailman/listinfo/r-package-devel > > > > > > > > > > [[alternative HTML version deleted]] > > ______________________________________________ > R-package-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-package-devel > [[alternative HTML version deleted]] ______________________________________________ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
