Thank you again Uwe, So, to clarify - is the error occurring because RankProd is not found in BioC 3.13 (current release is 3.12)? If so, I'm not sure how I can fix this...
Thanks Andrew On Wed, Apr 7, 2021 at 5:45 AM Uwe Ligges <lig...@statistik.tu-dortmund.de> wrote: > > > On 06.04.2021 19:26, Robert M. Flight wrote: > > 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 > > Not needed for CRAN. > > You simply need to declare the dependency, but BioC 3.13 is what we > should use to check with R-devel and that was recetnly still pretty > iunstable. > > Best, > Uwe Ligges > > > 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 > > > [[alternative HTML version deleted]] ______________________________________________ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
