[R-pkg-devel] CRAN submission spp 1.15.3. NOTE: checking S3 generic/method consistency

[Carmen M. Livi]

Dear Uwe Ligges,

after submitting our package to CRAN we are getting the following NOTE:

===
* checking S3 generic/method consistency ... NOTE
Found the following apparent S3 methods exported but not registered:
  points.within
See section 'Registering S3 methods' in the 'Writing R Extensions'
manual.
===

"points.within" is not a S3 method. It is a function defined in the 
package.
The package is already widely used in the scientific community. 
Therefore renaming the function is not an option as it would cause a lot 
of problems to the users.

But I saw that there are several packages available on CRAN that contain 
NOTES reporting the same issue. For example:
https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-debian-clang/pROC-00check.html

Do you have an advice on how I can address this problem? Would it be 
possible to still proceed with the submission as we are not getting 
errors nor warnings?

Kind regards,
Carmen



>> Thanks, we see:
>>
>>
>> * checking top-level files ... NOTE
>> Non-standard file/directory found at top level:
>>  'aclocal.m4'
>>
>>
>> * checking S3 generic/method consistency ... NOTE
>> Found the following apparent S3 methods exported but not registered:
>>  points.within
>> See section 'Registering S3 methods' in the 'Writing R Extensions'
>> manual.
>>
>>
>> * checking Rd \usage sections ... NOTE
>> S3 methods shown with full name in documentation object 'points.within':
>>  'points.within'
>>
>> The \usage entries for S3 methods should use the \method markup and not
>> their full name.
>> See chapter 'Writing R documentation files' in the 'Writing R
>> Extensions' manual.
>>
>>
>> Is there some reference about the method you can add in the 
>> Description field in the form Authors (year) <doi:.....>?
>>
>>
>> Please fix and resubmit.
>>
>> Best,
>> Uwe Ligges