Dealing with .git folder when using R CMD INSTALL
I'm sorry, I should have indeed given a better description. The package I'm seeing the issue with, can be found here : https://github.com/CenterForStatistics-UGent/RCM The problem becomes visible when opening an RStudio session and running BiocCheck::BiocCheck() (This is a Bioconductor package)
BiocCheck::BiocCheck()
This is BiocCheck version 1.18.0. BiocCheck is a
work in progress. Output and severity of issues may
change. Installing package...
* Checking vignette directory...
This is a software package
# of chunks: 39, # of eval=FALSE: 4 (10%)
* Checking version number...
Checking version number validity...
Package version 0.99.0; pre-release
* Checking R Version dependency...
* Checking package size...
Skipped... only checked on source tarball
* Checking individual file sizes...
* WARNING: The following files are over 5MB in size:
'.git/objects/pack/pack-92e66ff77b78e7fa5121747871adeaa41fb1feb6.pack'
...
And at this point I start hitting myself so I can utter an apology and
inform you that BiocCheck doesn't check filesize on the installed package
but on the original project directory.
My mistake, and I should have been more careful before bothering you all.
Cheers
Joris
On Thu, Dec 6, 2018 at 4:14 PM Dirk Eddelbuettel <edd at debian.org> wrote:
On 6 December 2018 at 15:59, Ralf Stubner wrote: | On 06.12.18 15:19, Joris Meys wrote: | > I know this R CMD build ignores these files and folders by default, but R | > CMD INSTALL doesn't apparently. | | to me this is not apparent. I just tried "R CMD INSTALL ." in a package | directory with a .git directory. This went without any problems. What do | you observe? Seconded. I joked off-list to Joris that this post failed to contain a MCVE (== minimally complete verifiable example). Witness below -- two installations from a directory containing .git yet none in the installed directory. Could what you describe be particular to your OS or filesystem? edd at rob:~/git/dang$ ls -a . dang_0.0.7.tar.gz dang.Rproj .gitignore R .Rhistory .. dang_0.0.8.tar.gz DESCRIPTION man .Rbuildignore .Rproj.user ChangeLog dang.Rcheck .git NAMESPACE README.md .travis.yml edd at rob:~/git/dang$ R CMD INSTALL . * installing to library ?/usr/local/lib/R/site-library? * installing *source* package ?dang? ... ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded * DONE (dang) edd at rob:~/git/dang$ ls -a /usr/local/lib/R/site-library/dang/ . .. DESCRIPTION help html INDEX Meta NAMESPACE R edd at rob:~/git/dang$ install.r * installing *source* package found in current working directory ... * installing *source* package ?dang? ... ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded * DONE (dang) edd at rob:~/git/dang$ ls -a /usr/local/lib/R/site-library/dang/ . .. DESCRIPTION help html INDEX Meta NAMESPACE R edd at rob:~/git/dang$ Dirk -- http://dirk.eddelbuettel.com | @eddelbuettel | edd at debian.org
______________________________________________ R-devel at r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
Joris Meys Statistical consultant Department of Data Analysis and Mathematical Modelling Ghent University Coupure Links 653, B-9000 Gent (Belgium) <https://maps.google.com/?q=Coupure+links+653,%C2%A0B-9000+Gent,%C2%A0Belgium&entry=gmail&source=g> ----------- Biowiskundedagen 2017-2018 http://www.biowiskundedagen.ugent.be/ ------------------------------- Disclaimer : http://helpdesk.ugent.be/e-maildisclaimer.php [[alternative HTML version deleted]]