[R-pkg-devel] Error uploading package to CRAN that depends on packages hosted in GitHub

[Uwe Ligges]

On 07.07.2021 17:21, Duncan Murdoch wrote:
> On 07/07/2021 9:08 a.m., Uwe Ligges wrote:
>>
>>
>> On 07.07.2021 13:18, Duncan Murdoch wrote:
>>> On 07/07/2021 5:29 a.m., David Enrique Payares García wrote:
>>>> Hello everybody,
>>>>
>>>> I developed an R package that depends on packages hosted in GitHub.
>>>> In the DESCRIPTION file, I added the R packages (from GitHub ) in the
>>>> "Suggests" section and I included a copy of them in my personal 
>>>> GitHub so
>>>> they can be accessed in the "Additional_repositories:" section.
>>>>
>>>>
>>>> Suggests:
>>>>       rmarkdown,
>>>>       ANTsR,
>>>>       ANTsRCore,
>>>>       ITKR,
>>>>       extrantsr,
>>>>       MNITemplate,
>>>>       RAVEL
>>>> Imports:
>>>>       knitr,
>>>>       oro.nifti,
>>>>       fslr,
>>>>       neurobase
>>>> Depends:
>>>>       R (>= 3.5)
>>>> Additional_repositories: https://davidpayares.github.io/drat
>>>>
>>>>
>>>> A copy of the R packages my package needs is in
>>>> https://davidpayares.github.io/drat .
>>>> When I submit the package to CRAN, I get this error:
>>>>
>>>>
>>>> Suggests or Enhances not in mainstream repositories:
>>>>       ANTsR, ANTsRCore, ITKR, extrantsr, MNITemplate, RAVEL
>>>>     Availability using Additional_repositories specification:
>>>>       ANTsR         yes   https://davidpayares.github.io/drat
>>>>       ANTsRCore     yes   https://davidpayares.github.io/drat
>>>>       ITKR          yes   https://davidpayares.github.io/drat
>>>>       extrantsr     yes   https://davidpayares.github.io/drat
>>>>       MNITemplate   yes   https://davidpayares.github.io/drat
>>>>       RAVEL         yes   https://davidpayares.github.io/drat
>>>>
>>>> Flavor: r-devel-linux-x86_64-debian-gcc, r-devel-windows-ix86+x86_64
>>>> Check: package dependencies, Result: ERROR
>>>>     Packages suggested but not available for checking:
>>>>       'ANTsR', 'ANTsRCore', 'ITKR', 'extrantsr', 'MNITemplate', 'RAVEL'
>>>>
>>>>     Namespace dependencies missing from DESCRIPTION Imports/Depends
>>>> entries:
>>>>       'MNITemplate', 'RAVEL', 'extrantsr'
>>
>>
>> As the message says: You likely have declared some import directives via
>> the NAMESPACE file. In that case you have to import from a package and
>> hence list it in the Imports field.
> 
> Maybe the message should say "NAMESPACE dependencies missing from 
> DESCRIPTION Imports/Depends entries" to make that even more obvious?


Thanks, I will suggest the change,
Uwe

> Duncan Murdoch
> 
>>
>> If the package is not available from a mainsteam repository and you want
>> to suggest it only, you cannot import from it via the NAMESPACE file.
>>
>> Best,
>> Uwe Ligges
>>
>>
>>
>>> I think this one is the part causing the ERROR.  Without seeing your
>>> package I can't say for sure, but I would guess you have made some
>>> unconditional use of those three packages.  Since they are only
>>> Suggested packages, you can't do that.  Your package has to run even if
>>> they are not available at all.  (It may not have full functionality, but
>>> it shouldn't generate any errors in its tests or examples.)
>>>
>>> Duncan Murdoch
>>>
>>>
>>>>
>>>> I found that this is the correct way to add dependencies that are not
>>>> hosted in CRAN. However, I do not understand why it is not working. If
>>>> anyone could help me, I would really appreciate it.
>>>>
>>>> Thank you so much.
>>>>
>>>> Cheers,
>>>>
>>>> David Payares
>>>>
>>>>      [[alternative HTML version deleted]]
>>>>
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>>>>
>>>
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>