R devel - Aug 2025 - overriding built in Rbuildignore values

Dear All,

Is there a way to override the default entries in

tools::get_exclude_patterns()

When checking an R package.

R 4.5.1 now has an entry

"\\.sw.$"

Instead of

"\\.swp$"

In earlier versions. This was associated with
https://github.com/wch/r-source/commit/7bc89c8ab13003238d4b2e6f732a8a537255031d
/ SVN commit 87718 which hoped to exclude private emacs/vim files.

Unfortunately the change also catches  *.swc files ? the standard format for
representing the shape of neurons in neuroscience which are used for tests in my
package https://cran.r-project.org/package=nat.

Many thanks for any pointers,

Greg.

PS @Dirk Eddelbuettel if you'll forgive me, I am ccing directly as looks
like the patch was yours.

--
Gregory Jefferis
Division of Neurobiology
MRC Laboratory of Molecular Biology
Francis Crick Avenue
Cambridge Biomedical Campus
Cambridge, CB2 OQH, UK

http://www2.mrc-lmb.cam.ac.uk/group-leaders/h-to-m/g-jefferis
http://jefferislab.org
https://www.zoo.cam.ac.uk/research/groups/connectomics

Hi Greg,

On 7 August 2025 at 19:23, Dr Gregory Jefferis wrote:
| Is there a way to override the default entries in
| 
| tools::get_exclude_patterns()
| 
| When checking an R package.
| 
| R 4.5.1 now has an entry
| 
| "\\.sw.$"
| 
| Instead of
| 
| "\\.swp$"
| 
| In earlier versions. This was associated with
https://github.com/wch/r-source/commit/7bc89c8ab13003238d4b2e6f732a8a537255031d
/ SVN commit 87718 which hoped to exclude private emacs/vim files.
| 
| Unfortunately the change also catches  *.swc files ? the standard format for
representing the shape of neurons in neuroscience which are used for tests in my
package https://cran.r-project.org/package=nat.
| 
| Many thanks for any pointers,
| 
| Greg.
| 
| PS @Dirk Eddelbuettel if you'll forgive me, I am ccing directly as looks
like the patch was yours.
>From memory, this was for vi-famility editor swapfiles where we had seen
additional letters beside the 'p' following 'sw'. I do not
recall what those
letters were but we may be able to find out and restrict to, say,
'[pqrst]',
say.

An override facility sounds like a lot of work. Can you possibly work around
it by, say, renaming (in the package) to '.swc.bin' (say) and then
renamed
those to '.swc' before your tests run?  Or bundle the '.swc' in
a zip or tar
or alike archive and uncompress on demand?

Dirk

-- 
dirk.eddelbuettel.com | @eddelbuettel | edd at debian.org