[R-pkg-devel] no visible global function definition

[Uwe Ligges]

On 29.06.2015 19:19, Zhian Kamvar wrote:
> Does this also mean that we now need to include these packages (stats, graphics, etc) in the Imports field of the DESCRIPTION?

Yes. And by proper import directives in the NAMESPACE file, ideally you 
should be selectively importing via importFrom() directives.

Best,
Uwe Ligges

>
> Thanks,
> Zhian
>> On Jun 29, 2015, at 10:09 , Kevin Ushey <kevinushey at gmail.com> wrote:
>>
>> Hi Uwe,
>>
>> It seems like this is quite a major change; I imagine it will affect many
>> packages (since lots of packages implicitly assume other 'base' packages,
>> like 'utils', will always be available in an R session). IIUC, in the
>> latest versions of R-devel, only the 'base' package can be assumed
>> available; everything else must be explicitly imported.
>>
>> https://github.com/wch/r-source/commit/dba5a49dcae7e9bcb8528cf78fd9d51f092652b2
>>
>> Is there any chance that such changes could be made in announcements on
>> R-pkg-devel? Or, as an aside, would it be permissible for non-R-core
>> members to make such announcements on this list?
>>
>> Thanks,
>> Kevin
>>
>> On Mon, Jun 29, 2015 at 8:46 AM, Uwe Ligges <ligges at statistik.tu-dortmund.de
>>> wrote:
>>
>>>
>>>
>>> On 29.06.2015 11:10, Daniel Lüdecke wrote:
>>>
>>>> Hello,
>>>>
>>>> I'm doing my package check for CRAN, in order to see whether submitting
>>>> the
>>>> package-update passes all checks.
>>>> I'm doing the tests under Windows 7, using R-Version "R Under development
>>>> (unstable) (2015-06-28 r68602)".
>>>>
>>>> Now I got a quite long list of NOTEs, which are probably no problem,
>>>> however, I would like to fix these issues, if possible.
>>>>
>>>> It seems that all base and/or stats function now produce a note concering
>>>> the visible global function definition. Here's a short example of my
>>>> output
>>>> from my package check:
>>>>
>>>> sjp.grpfrq: no visible global function definition for 'sd'
>>>> sjp.grpfrq: no visible global function definition for 'plot'
>>>> sjp.int: no visible global function definition for 'sd'
>>>> sjp.int: no visible global function definition for 'quantile'
>>>> sjp.int: no visible global function definition for 'plogis'
>>>> sjp.likert: no visible global function definition for 'xtabs'
>>>> sjp.likert: no visible binding for global variable 'offset'
>>>> sjp.likert: no visible global function definition for 'plot'
>>>> sjp.lm: no visible global function definition for 'coef'
>>>> sjp.lm: no visible global function definition for 'coefficients'
>>>> sjp.lm: no visible global function definition for 'confint'
>>>> sjp.lm.eff: no visible global function definition for 'model.matrix'
>>>>
>>>> Do I have to import all these namespaces now? I'm using RStudio with
>>>> roxygen, so I would add an @importFrom stats <function_x_y> where
>>>> necessary
>>>> - but is this the new requirement as of R >= 3.3?
>>>>
>>>
>>> Yes. And it should have been a requirement before, I believe.
>>>
>>> Best,
>>> Uwe Ligges
>>>
>>>
>>>
>>>
>>>> Best wishes
>>>> Daniel
>>>>
>>>>
>>>>
>>>>
>>>> --
>>>>
>>>> _____________________________________________________________________
>>>>
>>>> Universitätsklinikum Hamburg-Eppendorf; Körperschaft des öffentlichen
>>>> Rechts; Gerichtsstand: Hamburg | www.uke.de
>>>> Vorstandsmitglieder: Prof. Dr. Burkhard Göke (Vorsitzender), Prof. Dr.
>>>> Dr. Uwe Koch-Gromus, Joachim Prölß, Rainer Schoppik
>>>> _____________________________________________________________________
>>>>
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>>>>
>>>> ______________________________________________
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>>>>
>>>>
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>>
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