[Rd] bzip2'ed data under data/

Prof Brian Ripley ripley at stats.ox.ac.uk
Mon Mar 26 17:44:58 CEST 2012

On 26/03/2012 16:34, Sebastian P. Luque wrote:
> On Wed, 21 Mar 2012 18:35:15 +0000,
> Prof Brian Ripley<ripley at stats.ox.ac.uk>  wrote:
>> On 19/03/2012 20:25, Sebastian P. Luque wrote:
>>> Hi,
>>> R CMD check PACKAGE_VERSION_tar.gz gives warning:
>>> Files not of a type allowed in a ‘data’ directory: ‘tser1.csv.bz2’
>>> ‘tser2.csv.bz2’ Please use e.g. ‘inst/extdata’ for non-R data files
>>> which I didn't expect, based on section 1.1.5 (Data in packages) of
>>> the Writing R Extensions manual:
>>> Tables (`.tab', `.txt', or `.csv' files) can be compressed by `gzip',
>>> `bzip2' or `xz', optionally with additional extension `.gz', `.bz2'
>>> or `.xz'.  However, such files can only be used with R 2.10.0 or
>>> later, and so the package should have an appropriate `Depends' entry
>>> in its DESCRIPTION file.
>>> In this case, I have a Depends: R (>= 2.13.0), and the package was
>>> built with R version 2.15.0 beta (2012-03-16 r58769), Platform:
>>> x86_64-pc-linux-gnu (64-bit), so I don't understand the warning.
>>> Cheers,
>> Well, the extension is allowed 'optionally' to be .csv.bz2, but that
>> does not make it good practice and I would suggest not using it.
> Does this mean we can still compress the files, but leave the file name
> with suffix *.csv (i.e. not adding the compression-specific suffix)?
> The 2 files I'm including in the package are a little over 1 Mb, and
> bzip2 gets them down to<  150 Kb.

Yes, that is what the help file says.
>> But that 'check' picked it up was a typo in the code 'check' used to
>> specify types of data() files, corrected since your build of R so I
>> would expect current R-devel or R-pre-release not to give the NOTE.  I
>> am not sure whether or not that has any ramifications for users of the
>> package with older versions of R, but we know calling the compressed
>> file foo.csv would work.
> Up to R 2.14.2, R CMD check was reporting a Warning, rather than a Note,
> but indeed the latest R-devel and R-pre-release don't.  Thanks.
> Cheers,

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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