[R-pkg-devel] Package Rejection Error Help

[Robert M. Flight]

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 <adhawan using 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 <
> ligges using 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 using r-project.org mailing list
> > >>> https://stat.ethz.ch/mailman/listinfo/r-package-devel
> > >>>
> > >>
> > >> ______________________________________________
> > >> R-package-devel using r-project.org mailing list
> > >> https://stat.ethz.ch/mailman/listinfo/r-package-devel
> > >
> > >
> >
>
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>
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