Re: [Rd] Log file of building vignette in RCMD check

From: Prof Brian Ripley <ripley_at_stats.ox.ac.uk>
Date: Mon, 06 Jun 2011 17:59:17 +0100 (BST)

On Mon, 6 Jun 2011, Uwe Ligges wrote:

>
>
> On 06.06.2011 15:30, Stefan McKinnon Høj-Edwards wrote:
>> Hello,
>>
>> I am trying to run "RCMD check" on a package. It performs OK, with the
>> exception of a single warning:
>> * checking package vignettes in 'inst/doc' ... WARNING
>> Package vignette(s) without corresponding PDF:
>> AnnotationFuncsUserguide.Rnw
>
> R CMD build should build the vignettes. If it did not succeed, see its output
> for details.

You can also use tools::buildVignettes to do it manually. But R CMD check is reporting that you failed to do it at all: it is not the job of R CMD check and the PDF of the vignette should be in the tarball/directory you supply to be checked.

>
> Uwe Ligges
>
>
>
>>
>> As I understand the problem, the vignette is not built. However, I have no
>> problems in doing so manually.
>> How do I fix this problem? I cannot find any logs for building the
>> vignette, however the output from building the pdf-file of the manual is
>> found in the .Rcheck folder.
>>
>> On a similar note, as my vignette includes a biblio, I have to run "latex"
>> twice to get the citations referenced properly with a number. Is this an
>> issue? How can I work around it? (The package is submitted to BioC, so
>> there might be other rules there?)

It indicates that you failed to use the tools we provided, R CMD build, tools::buildVignettes() and tools::texi2dvi().

>> Thank you in advanced.
>> Yours sincerely,
>>
>> Stefan McKinnon Høj-Edwards Dept. of Genetics and Biotechnology
>> PhD student Faculty of Agricultural Sciences
>> stefan.hoj-edwards_at_agrsci.dk Aarhus University
>> Tel.: +45 8999 1291 Blichers Allé 20, Postboks 50
>> Web: www.iysik.com DK-8830 Tjele
>> Tel.: +45 8999 1900
>> Web: www.agrsci.au.dk

-- 
Brian D. Ripley,                  ripley_at_stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595


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