From murdoch.duncan at gmail.com  Tue Jul 30 13:18:04 2013
From: murdoch.duncan at gmail.com (Duncan Murdoch)
Date: Tue, 30 Jul 2013 07:18:04 -0400
Subject: [Rd] Error from R CMD check
In-Reply-To: <AA818EAD2576BC488B4F623941DA7427CD31C519@inbomail.inbo.be>
References: <AA818EAD2576BC488B4F623941DA7427CD31C519@inbomail.inbo.be>
Message-ID: <51F7A0EC.4070502@gmail.com>

On 13-07-30 6:34 AM, ONKELINX, Thierry wrote:
> Dear all,
>
> I'm puzzled by the error I get from R CMD check one of my packages. I'm running R CMD check with the --as-cran flag and it get the error both from running it from the command line as from within Rstudio. On the same machine R CMD check on my GRTS package (https://r-forge.r-project.org/R/?group_id=1027) works fine.
>
> Any suggestions on how to fix this? I can send the source code in a private email if required.
>
> Best regards,
>
> Thierry
>
> Output from Rcmd.exe check --as-cran watervogels_0.3-27.tar.gz
>
>
> * using log directory 'U:/svn2/watervogels/watervogels.Rcheck'
> * using R version 3.0.1 Patched (2013-07-14 r63298)
> * using platform: i386-w64-mingw32 (32-bit)
> * using session charset: ISO8859-1
> * checking for file 'watervogels/DESCRIPTION' ... OK
> * checking extension type ... Package
> * this is package 'watervogels' version '0.3-27'
> * package encoding: UTF-8
> * checking CRAN incoming feasibility ... NOTE
> Maintainer: 'Thierry Onkelinx <Thierry.Onkelinx at inbo.be>'
> New submission
> Non-FOSS package license (Private package of the Research Institute for Nature and
> Forest)
> * checking package namespace information ... OK
> * checking package dependencies ... OK
> * checking if this is a source package ... OK
> * checking if there is a namespace ... OK
> * checking for executable files ... OK
> * checking for hidden files and directories ... OK
> * checking for portable file names ... OK
> * checking whether package 'watervogels' can be installed ... ERROR
> Installation failed.
> See 'U:/svn2/watervogels/watervogels.Rcheck/00install.out' for details.
>
> Exited with status 1.
>
>
>
> Output from 00install.out
>
> * installing *source* package 'watervogels' ...
> ** R
> ** data
> ** inst
> ** preparing package for lazy loading
> ** help
> *** installing help indices
> ** building package indices
> ** installing vignettes
> ** testing if installed package can be loaded
> Warning in Sys.junction(from, to) :
>    cannot set reparse point 'C:\DOCUME~1\THIERR~2\LOCALS~1\Temp\RtmpMZUCyo\RLIBS_15585fa46d84/watervogels', reason 'De in de reparsepuntbuffer aanwezige gegevens zijn ongeldig'
> Error in flink(normalizePath(pkgdir), tmplib) :
>    cannot link from U:\svn2\watervogels\watervogels.Rcheck\00_pkg_src\watervogels
> * removing 'U:/svn2/watervogels/watervogels.Rcheck/watervogels'
>
> A translation of the error message: The data in the reparse point buffer are invalid.

It's hard to diagnose the cause of the error, but you can avoid the use 
of junctions by setting the environment variable R_WIN_NO_JUNCTIONS to 
some non-empty content, and that might avoid it.

Duncan Murdoch



[Rd] Error from R CMD check
Duncan Murdoch