[R-pkg-devel] Package Rejection Error Help

[Andrew Dhawan]

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 <ligges using 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 <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
> >>>>
> >>>>
> >>>
> >>
> >>          [[alternative HTML version deleted]]
> >>
> >> ______________________________________________
> >> R-package-devel using r-project.org mailing list
> >> https://stat.ethz.ch/mailman/listinfo/r-package-devel
> >>
> >
> >       [[alternative HTML version deleted]]
> >
> > ______________________________________________
> > R-package-devel using r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/r-package-devel
> >
>

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