checking for executable files ... WARNING - R-devel

Mon, Nov 17, 2008 5:24 PM #

In R 2.8. I get the following warning when checking my package:

* checking for executable files ... WARNING
Found the following executable file(s):
  .git/objects/00/12947a4bb4379fb0c3bed740314a9f4ac72331
  .git/objects/00/21fac22a57a1567389ed34a9dc4f465c6cfd01
  .git/objects/00/29da5c289489fdb2249e19f4b165ff5b37b3e6
  .git/objects/00/36ad7f586eeac250e6609a1bf938e545101cb0
 ... (for about 300 lines)

I've tried putting .git in my .Rbuildignore, but this doesn't help the
problem.  Any ideas?

Thanks,

Hadley

http://had.co.nz/

Brian Ripley

Mon, Nov 17, 2008 11:31 PM #

On Mon, 17 Nov 2008, hadley wickham wrote:

Does 'R CMD build' a tarball and then 'R CMD check' not solve this?
'build' skips git files, and you only need to worry about executables in 
a tarball you ship.

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

Hadley Wickham

Tue, Nov 18, 2008 4:57 AM #

On Tue, Nov 18, 2008 at 1:31 AM, Prof Brian Ripley

<ripley at stats.ox.ac.uk> wrote:

Is this suggested best practice now?

Hadley

http://had.co.nz/

Brian Ripley

Tue, Nov 18, 2008 5:00 AM #

On Tue, 18 Nov 2008, hadley wickham wrote:

Always was, AFAIK.

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

Hadley Wickham

Tue, Nov 18, 2008 5:05 AM #

On Tue, Nov 18, 2008 at 7:00 AM, Prof Brian Ripley

<ripley at stats.ox.ac.uk> wrote:

I might be useful to make this more explicit in "Writing R
extensions".  A sentence at the start of 1.3.1 "checking packages"
would be helpful, as would removing this sentence from 1.3.2:

"Run-time checks whether the package works correctly should be
performed using R CMD check prior to invoking the build procedure."

and strengthening the recommendation in this sentence:

"It can be useful to run R CMD check --check-subdirs=yes on the built
tarball as a final check on the contents."

You didn't mention "--check-subdirs=yes" and I see from R CMD CHECK
--help that yes is now the default, so perhaps that could be removed
too.

Hadley

http://had.co.nz/