From josh.m.ulrich at gmail.com  Tue Dec  9 18:50:00 2008
From: josh.m.ulrich at gmail.com (Josh Ulrich)
Date: Tue, 9 Dec 2008 11:50:00 -0600
Subject: [Rd] R CMD check not running examples under Windows
In-Reply-To: <366AA6C6662BAB4796FF54F8D8BFC74202B7A10AFA@ExchMailbox1.univ.dir.wwu.edu>
References: <366AA6C6662BAB4796FF54F8D8BFC74202B7973647@ExchMailbox1.univ.dir.wwu.edu>
	<493E4239.2090300@statistik.tu-dortmund.de>
	<366AA6C6662BAB4796FF54F8D8BFC74202B7A10AFA@ExchMailbox1.univ.dir.wwu.edu>
Message-ID: <8cca69990812090950w8e15434vb323405ad036b1a1@mail.gmail.com>

This is a shot in the dark, but I noticed your PATH contains spaces in
the paths to HTML Help and MiKTeX.  The R Install & Admin manual
explicitly says not to paths with spaces.  If anything, it won't hurt
to make this correction.

HTH,
Josh
--
http://quantemplation.blogspot.com



On Tue, Dec 9, 2008 at 11:32 AM, Andy Bunn <Andy.Bunn at wwu.edu> wrote:
>> -----Original Message-----
>> From: Uwe Ligges [mailto:ligges at statistik.tu-dortmund.de]
>> Sent: Tuesday, December 09, 2008 2:03 AM
>> To: Andy Bunn
>> Cc: r-devel at r-project.org
>> Subject: Re: [Rd] R CMD check not running examples under Windows
>>
>> My suggestion is to submit the package to the win-builder service and
>> look whether that one checks your example, then you know if it is the
>> package or your setup that causes the problem.
>
> Uwe, thanks for the tip but the issue is definitely my system - not the package. I've built a skeleton using package.skeleton() and the same phenomenon occurs. Same with checking CRAN packages from source. If it is a problem with my system - how do I go about trouble shooting?
>
>
>
>>
>> Best,
>> Uwe Ligges
>>
>>
>> Andy Bunn wrote:
>> > All,
>> >
>> >
>> > I have a fresh build of R 2.8.0 from source on Windows XP using the
>> latest Rtools binary (Rtools29.exe). All appears to be well with the
>> install and make check-all exits cleanly. However, when running R CMD
>> check mypkg the program jumps from checking for non-ASCII to checking
>> the PDF version of the manual:
>> >
>> > * checking data for non-ASCII characters ... OK
>> > * checking PDF version of manual ... OK
>> >
>> > It skips the making the R-ex subdir and checking the examples. Here
>> is the complete log:
>> >
>> >
>> > * using log directory 'C:/Data/research/dplR_dev/dplR.Rcheck'
>> > * using R version 2.8.0 (2008-10-20)
>> > * using session charset: ISO8859-1
>> > * checking for file 'dplR/DESCRIPTION' ... OK
>> > * checking extension type ... Package
>> > * this is package 'dplR' version '1.1.5'
>> > * checking package name space information ... OK
>> > * checking package dependencies ... OK
>> > * checking if this is a source package ... OK
>> > * checking for .dll and .exe files ... OK
>> > * checking whether package 'dplR' can be installed ... OK
>> > * checking package directory ... OK
>> > * checking for portable file names ... OK
>> > * checking DESCRIPTION meta-information ... OK
>> > * checking top-level files ... OK
>> > * checking index information ... OK
>> > * checking package subdirectories ... OK
>> > * checking R files for non-ASCII characters ... OK
>> > * checking R files for syntax errors ... OK
>> > * checking whether the package can be loaded ... OK
>> > * checking whether the package can be loaded with stated dependencies
>> ... OK
>> > * checking whether the name space can be loaded with stated
>> dependencies ... OK
>> > * checking for unstated dependencies in R code ... OK
>> > * checking S3 generic/method consistency ... OK
>> > * checking replacement functions ... OK
>> > * checking foreign function calls ... OK
>> > * checking R code for possible problems ... OK
>> > * checking Rd files ... OK
>> > * checking Rd cross-references ... OK
>> > * checking for missing documentation entries ... OK
>> > * checking for code/documentation mismatches ... OK
>> > * checking Rd \usage sections ... OK
>> > * checking data for non-ASCII characters ... OK
>> > * checking PDF version of manual ... OK
>> >
>> > I am running this with no flags yet it seems like I'm outside this
>> line in the check script:
>> >   if($opt_examples && (-d &file_path($library, $pkgname, "R-ex"))) {
>> >
>> > Here is the version:
>> >> version
>> >                _
>> > platform       i386-pc-mingw32
>> > arch           i386
>> > os             mingw32
>> > system         i386, mingw32
>> > status
>> > major          2
>> > minor          8.0
>> > year           2008
>> > month          10
>> > day            20
>> > svn rev        46754
>> > language       R
>> > version.string R version 2.8.0 (2008-10-20)
>> >
>> >
>> > And the PATH:
>> > C:\Data\research\dplR_dev>PATH
>> > PATH=c:\Rtools\bin;c:\Rtools\perl\bin;c:\Rtools\MinGW\bin;C:\R\R-
>> 2.8.0\bin\;C:\P
>> > rogram Files\HTML Help Workshop\;C:\Program Files\MiKTeX
>> 2.6\miktex\bin;C:\cygwi
>> >
>> n\bin;C:\FWTools2.2.6\bin;C:\WINDOWS\system32;C:\WINDOWS;C:\WINDOWS\Sys
>> tem32\Wbe
>> > m;C:\WINDOWS\system32\nls;C:\WINDOWS\system32\nls\ENGLISH;C:\Program
>> Files\Novel
>> > l\ZENworks\;C:\Program
>> Files\QuickTime\QTSystem;C:\ArcGIS\arcexe9x\bin;C:\Progra
>> > m Files\Common Files\GTK\2.0\bin;C:\Program Files\GPS Pathfinder
>> Office 3.10;C:\
>> > dpl;C:\Program Files\QuickTime\QTSystem\;C:\Program Files\SSH
>> Communications Sec
>> > urity\SSH Secure Shell;Z:.;
>> >
>> > I expect some cygwin or perl issue but I'm not sure how to proceed in
>> tracking this down. Cygwin is a fresh install as well. Any suggestions
>> on what to do next greatly appreciated.
>> >
>> > -A
>> >
>> > ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>> > Andy Bunn
>> > Environmental Sciences, Huxley College
>> > Western Washington University
>> > Bellingham, WA 98225-9181
>> > Skype: andy.bunn
>> > Phone: 360-650-4252
>> > Fax: 360-650-7284
>> > http://myweb.facstaff.wwu.edu/bunna/
>> >
>> > ______________________________________________
>> > R-devel at r-project.org mailing list
>> > https://stat.ethz.ch/mailman/listinfo/r-devel
>
> ______________________________________________
> R-devel at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-devel
>



[Rd] R CMD check not running examples under Windows
Josh Ulrich