[R-pkg-devel] Weird error on CRAN linux check

[Iñaki Úcar]

It seems Joris is right. The following patch seems to solve the issue for me:

diff --git a/R/attributes.R b/R/attributes.R
index e7f4ab9..18ebdab 100644
--- a/R/attributes.R
+++ b/R/attributes.R
@@ -156,6 +156,7 @@ make_getter_setters <- function(attr_name,
attr_type = c('cell', 'row', 'col', '
   ) # end switch

   lapply(names(funs), function (x) {
+    environment(funs[[x]]) <- getNamespace('huxtable')
     assign(x, funs[[x]], envir = getNamespace('huxtable'))
   })

Iñaki
El mié., 4 jul. 2018 a las 21:34, Duncan Murdoch
(<murdoch.duncan using gmail.com>) escribió:
>
> On 04/07/2018 3:23 PM, Joris Meys wrote:
> > I just took a look at your repo, and two remarks:
> >
> > - you use roxygen, and used both @export and @S3method. The latter one is
> > deprecated, so you should use only @export, or @method (see eg Hadley's
> > answer here : https://github.com/klutometis/roxygen/issues/741 )
> >
> > - You're using some code in attributes.R that should generate all the
> > getters and setters automatically, but it looks as if these objects aren't
> > generated in the right order/environment/... to be registered correctly.
> >
> > The part where I get confused, is the following. After installing:
> >
> >> ht <- huxtable(a = 1:3, b = 1:3)
> >> align(ht)
> > Error in UseMethod("align") :
> >    no applicable method for 'align' applied to an object of class
> > "c('huxtable', 'data.frame')"
> >> methods(align)
> > [1] align.huxtable*
> > see '?methods' for accessing help and source code
> >> getFromNamespace("align.huxtable","huxtable")
> > function (ht)
> > attr(ht, "align")
> > <bytecode: 0x0000000015f8bb88>
> > <environment: 0x0000000016840c18>
> >
> > The last line is what bothers me. That should be
> > <environment:namespace:huxtable>, like this:
> >
> >> environment(huxtable)
> > <environment: namespace:huxtable>
> >
> > So you generate the functions, they somehow get registered but they get
> > created in the wrong environment as far as I can tell. That's where I would
> > start looking.
> >
>
> That shouldn't matter.  That function was created in a local environment
> whose parent is <environment: namespace:huxtable> (probably by the
> huxtable:::make_setter_getters function, but I didn't check).
>
> Duncan Murdoch
>
>
>
> > CHeers
> > Joris
> >
> >
> > On Wed, Jul 4, 2018 at 8:12 PM, David Hugh-Jones <davidhughjones using gmail.com>
> > wrote:
> >
> >> I figured that. Actually I just tried this. I now get the interesting
> >> result that all calls to a generic fail with the UseMethod error...?
> >>
> >> On Wed, 4 Jul 2018 at 16:12, Joris Meys <Joris.Meys using ugent.be> wrote:
> >>
> >>> On Wed, Jul 4, 2018 at 4:22 PM, Hadley Wickham <h.wickham using gmail.com>
> >>> wrote:
> >>>
> >>>> I don't think it's related to the error, but you shouldn't be exporting
> >>>> this:
> >>>>
> >>>> export("align<-.huxtable")
> >>>>
> >>>> You should generally only export the method.
> >>>>
> >>>
> >>> Hadley means to say that you should generally only export the generic,
> >>> not the individual methods.
> >>> More information here:
> >>>
> >>> https://cran.r-project.org/doc/manuals/R-exts.html#Registering-S3-methods
> >>>
> >>> Cheers
> >>> Joris
> >>> --
> >>> Joris Meys
> >>> Statistical consultant
> >>>
> >>> Department of Data Analysis and Mathematical Modelling
> >>> Ghent University
> >>> Coupure Links 653, B-9000 Gent (Belgium)
> >>>
> >>> <https://maps.google.com/?q=Coupure+links+653,%C2%A0B-9000+Gent,%C2%A0Belgium&entry=gmail&source=g>
> >>>
> >>> tel: +32 (0)9 264 61 79
> >>> -----------
> >>> Biowiskundedagen 2017-2018
> >>> http://www.biowiskundedagen.ugent.be/
> >>>
> >>> -------------------------------
> >>> Disclaimer : http://helpdesk.ugent.be/e-maildisclaimer.php
> >>>
> >> --
> >> Sent from Gmail Mobile
> >>
> >
> >
> >
>
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-- 
Iñaki Úcar
http://www.enchufa2.es
@Enchufa2