From john.maindonald at anu.edu.au  Tue Jan 27 12:25:29 2015
From: john.maindonald at anu.edu.au (John Maindonald)
Date: Tue, 27 Jan 2015 11:25:29 +0000
Subject: [Rd] R-devel Digest, Vol 143, Issue 25
In-Reply-To: <mailman.20.1422270004.8306.r-devel@r-project.org>
References: <mailman.20.1422270004.8306.r-devel@r-project.org>
Message-ID: <E8BC67D0-EF5D-4F8C-A60D-1169F5D14AEC@anu.edu.au>

OK, I see now that I was supposed to twig that the reference was to putting the ?.Rnw'
files back into the vignettes directory from the inst/doc directory where they?d been
placed in the course of creating the tar.gz file.  I am still trying to work out what I need 
to put into ?.Rinstignore? so that ?.install_extras? is not installed.

John Maindonald             email: john.maindonald at anu.edu.au
phone : +61 2 (6125)3473    fax  : +61 2(6125)5549
Centre for Mathematics & Its Applications, Room 1194,
John Dedman Mathematical Sciences Building (Building 27)
Australian National University, Canberra ACT 0200.
John Maindonald             email: john.maindonald at anu.edu.au
phone : +61 2 (6125)3473    fax  : +61 2(6125)5549
Centre for Mathematics & Its Applications, Room 1194,
John Dedman Mathematical Sciences Building (Building 27)
Australian National University, Canberra ACT 0200.


On 26 Jan 2015, at 22:00, <r-devel-request at r-project.org> <r-devel-request at r-project.org> wrote:

> From: Prof Brian Ripley <ripley at stats.ox.ac.uk>
> Subject: Re: [Rd] R CMD check message: "The following files should probably not be installed"
> Date: 26 January 2015 19:52:12 AEDT
> To: <r-devel at r-project.org>
> 
> 
> On 25/01/2015 23:25, John Maindonald wrote:
>> I am doing [R version 3.1.2 (2014-10-31) -- "Pumpkin Helmet?; Platform: x86_64-apple-darwin10.8.0 (64-bit)]
>> 
>>> R CMD build DAAGviz
>>> R CMD check DAAGviz_1.0.3.tar.gz
>> 
>> Without a .Rinstignore file, I get:
>> 
>> <<<
>> The following files should probably not be installed:
>>   ?figs10.pdf?, ?figs11.pdf?, ?figs12.pdf?, ?figs13.pdf?, ?figs14.pdf?,
>>   ?figs5.pdf?, ?figs6.pdf?, ?figs9.pdf?
>> 
>> Consider the use of a .Rinstignore file: see ?Writing R Extensions?,
>> or move the vignette sources from ?inst/doc? to ?vignettes?.
>>>>> 
>> 
>> The vignette sources were in ?vignettes? when DAAGviz_1.0.3.tar.gz was created.  There was nothing in the ?inst/doc? directory.
>> 
>> If I have in my .Rinstignore file
>> 
>>   inst/doc/.*[.]pdf
> 
> That filters out more than the files warned about.  I guess you meant
> 
> inst/doc/figs.*[.]pdf
> 
> But the question has to be: how did the files get copied into inst/doc?  Maybe
> 
> 'When R CMD build builds the vignettes, it copies these and the vignette sources from directory vignettes to inst/doc. To install any other files from the vignettes directory, include a file vignettes/.install_extras which specifies these as Perl-like regular expressions on one or more lines. (See the description of the .Rinstignore file for full details.)'
> 
> suggests how?
> 
>> then I get:
>> 
>> <<<
>> * checking package vignettes in ?inst/doc? ... WARNING
>> Package vignettes without corresponding PDF/HTML:
>> . . .
>>>>> 
>> 
>> What am I missing?  Can I ignore the "The following files should probably not be installed? message?
> 
> Not if you want to submit the package to CRAN.
> 
> 
>> 
>> John Maindonald             email: john.maindonald at anu.edu.au
>> phone : +61 2 (6125)3473    fax  : +61 2(6125)5549
>> Centre for Mathematics & Its Applications, Room 1194,
>> John Dedman Mathematical Sciences Building (Building 27)
>> Australian National University, Canberra ACT 0200.
>> 
>> ______________________________________________
>> R-devel at r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/r-devel
>> 
> 
> 
> -- 
> Brian D. Ripley,                  ripley at stats.ox.ac.uk
> Emeritus Professor of Applied Statistics, University of Oxford
> 1 South Parks Road, Oxford OX1 3TG, UK



[Rd] R-devel Digest, Vol 143, Issue 25
John Maindonald