From mtmorgan at fhcrc.org  Mon Oct 25 13:36:10 2010
From: mtmorgan at fhcrc.org (Martin Morgan)
Date: Mon, 25 Oct 2010 04:36:10 -0700
Subject: [Rd] R-devel CMD build fails when vignette present
In-Reply-To: <alpine.LFD.2.00.1010251120190.1811@gannet.stats.ox.ac.uk>
References: <4CC49AE2.9050205@fhcrc.org>
	<alpine.LFD.2.00.1010251120190.1811@gannet.stats.ox.ac.uk>
Message-ID: <4CC56BAA.8030208@fhcrc.org>

On 10/25/2010 03:21 AM, Prof Brian Ripley wrote:
> Biobase is not self-contained so I cannot easily test it, but as far as
> I know this is now resolved.

Thank you it is. Martin

> 
> On Sun, 24 Oct 2010, Martin Morgan wrote:
> 
>> If I try to build a package with a vignette
>>
>>  R CMD build Biobase
>>
>> I see
>>
>> * checking for file 'Biobase/DESCRIPTION' ... OK
>> * preparing 'Biobase':
>> * checking DESCRIPTION meta-information ... OK
>> * cleaning src
>> * installing the package to re-build vignettes
>> * creating vignettes ... OK
>> * cleaning src
>> Error in setwd(pkgname) : cannot change working directory
>> Execution halted
>>
>> This is because prepare_pkg invoked at tools/R/build.R:605 changes the
>> directory (e.g., from /tmp/RtmprGGHhU/Rbuild257d6d93 to
>> /tmp/RtmprGGHhU/Rbuild257d6d93/Biobase), in turn because the on.exit at
>> build.R:223 is usurped by on.exit at build.R:256/259.
>>
>> Martin
>> -- 
>> Computational Biology
>> Fred Hutchinson Cancer Research Center
>> 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109
>>
>> Location: M1-B861
>> Telephone: 206 667-2793
>>
> 


-- 
Computational Biology
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109

Location: M1-B861
Telephone: 206 667-2793



[Rd] R-devel CMD build fails when vignette present
Martin Morgan