[R-pkg-devel] package build warning

[Glenn Schultz]

Hi Jack,

Thanks, do you think checking the files in the order of collate is the way to go?  I tried on a standalone basis and everything is okay so it must be as you suggested something before.

Glenn


> On Jul 25, 2016, at 1:52 AM, Jack Wasey <jack at jackwasey.com> wrote:
> 
> roxygen2 can be fragile when there are mistakes in preceding roxygen2 documentation blocks, or conflicting documentation blocks elsewhere in a package, and, if I remember correctly, extraneous empty lines. A lack of verbose options or logging makes debugging roxygen2 errors tricky sometimes. Try putting your function in its own file as a test. Is other expected Rd documentation missing? As a last resort, I have had to set debug break points in roxygen2 functions, so I can see where it is failing.
> 
> On Sunday, July 24, 2016, Glenn Schultz <glennmschultz at me.com <mailto:glennmschultz at me.com>> wrote:
> check on Generate documentation with Oxygen
> check devtools::document() does not create the man/MortgageEffectiveMeasures-class.Rd
> 
> I can share my sources but I am not sure the base way to go about.  It is on github in a private repo which I can provide access or ssh key
> 
> 
> Glenn
> 
> 
> > On Jul 24, 2016, at 4:56 PM, Kevin Ushey <kevinushey at gmail.com <javascript:;>> wrote:
> >
> > If you're using RStudio, have you enabled 'Generate documentation with
> > Roxygen' in your Project Options?
> >
> > Can you confirm whether manually invoking 'devtools::document()'
> > creates a file at 'man/MortgageEffectiveMeasures-class.Rd', with the
> > expected documentation?
> >
> > Everything looks fine for me with your example code in a dummy
> > package, so if you're still seeing an issue you're going to need to
> > share your package sources or an otherwise reproducible example.
> >
> > Kevin
> >
> > On Sun, Jul 24, 2016 at 2:37 PM, Glenn Schultz <glennmschultz at me.com <javascript:;>> wrote:
> >> Duncan is correct the class is not documented but the generics, methods, and constructor functions are documented.  Kevin, I updated both devtools and Roxygen2 with the same issue.  I am using R Studio.  I tried refactoring around some functions and files whose names were close in the event that there may be some conflict.  For now, it is just a warning soI will keep looking for the problem and if I can solve it post back here as it must be quite subtle given all else is working fine.
> >>
> >> Glenn
> >>
> >>
> >>> On Jul 24, 2016, at 3:27 PM, Kevin Ushey <kevinushey at gmail.com <javascript:;>> wrote:
> >>>
> >>> Did you call `devtools::document()` before building and checking your
> >>> package? Everything looks fine to me with your test example. You
> >>> should also double-check that you have up-to-date versions of the
> >>> devtools and roxygen2 packages.
> >>>
> >>> It's also worth knowing that nowadays you can generally just use
> >>> `@export` and roxygen2 will do the right thing, depending on what
> >>> object you are trying to export.
> >>>
> >>> On Sun, Jul 24, 2016 at 10:35 AM, Glenn Schultz <glennmschultz at me.com <javascript:;>> wrote:
> >>>> All,
> >>>>
> >>>> I get the following warning using Roxygen2
> >>>>
> >>>> * checking for missing documentation entries ... WARNING
> >>>> Undocumented S4 classes:
> >>>> ‘MortgageEffectiveMeasures’
> >>>>
> >>>> The code to create and document the class is below
> >>>>
> >>>> #' An S4 class MortgageEffectiveMeasures
> >>>> #'
> >>>> #' A class of mortgage effective duration and convexity
> >>>> #' @slot EffDuration A numeric value the Effective Duration
> >>>> #' @slot EffConvexity A numeric value the Effective Convexity
> >>>> #' @exportClass MortgageEffectiveMeasures
> >>>> setClass("MortgageEffectiveMeasures",
> >>>>          representation(
> >>>>          EffDuration = "numeric",
> >>>>          EffConvexity = "numeric"
> >>>>        ))
> >>>>
> >>>> The constructor function works and returns the class with the expected result.  The constructor function is documented as well as the generics and the methods.  So, I am a little puzzled as to why I am getting this warning.
> >>>>
> >>>> I have tried removing all code and refactoring a code chunk at a time - no help
> >>>> I remove the @exportClass and as expected I pass RCMD
> >>>>
> >>>> I have looked at this and refactored it so many times if there is a mistake (and I missed it early on) I can no longer see it.  But it is a simple class and is fully documented in my package with the exception of the class.  Any suggestions as to where I should look next are be appreciated.
> >>>>
> >>>> Best,
> >>>> Glenn
> >>>>
> >>>> ______________________________________________
> >>>> R-package-devel at r-project.org <javascript:;> mailing list
> >>>> https://stat.ethz.ch/mailman/listinfo/r-package-devel <https://stat.ethz.ch/mailman/listinfo/r-package-devel>
> >>
> 
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