[R-pkg-devel] Package Rejection Error Help

[Uwe Ligges]

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]]
>>>>>>
>>>>>> ______________________________________________
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>>>>>> 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]]
>>
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> 
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