From richcalaway at revolutionanalytics.com  Tue Dec  6 02:10:40 2011
From: richcalaway at revolutionanalytics.com (Rich Calaway)
Date: Mon, 5 Dec 2011 17:10:40 -0800
Subject: [Rd] Vignette using parallel's makeCluster function has trouble
 building on Windows 7
In-Reply-To: <CAF42j22XfcTTtDn4e_7E7eT-o7nHH0CgpdLVA8a=Hqeo52+bDg@mail.gmail.com>
References: <CA+_ZbMYoT0nxPJ7XnnGKjkWKvyEuaKXyjdKuMEmMJTEf+q6Ljg@mail.gmail.com>
	<CAF42j22XfcTTtDn4e_7E7eT-o7nHH0CgpdLVA8a=Hqeo52+bDg@mail.gmail.com>
Message-ID: <CA+_ZbMbYiYrdr_11N_Hxdypuoihz3p+0yXKvKrgJp20MQ8O+iA@mail.gmail.com>

Thanks, Dan! I think that's just what I needed.

--Rich

On Mon, Dec 5, 2011 at 4:50 PM, Dan Tenenbaum <dtenenba at fhcrc.org> wrote:
> Hi Rich,
>
> On Mon, Dec 5, 2011 at 4:19 PM, Rich Calaway
> <richcalaway at revolutionanalytics.com> wrote:
>> Hi, all--
>>
>> I've been working on a doParallel package to provide a foreach
>> parallel backend for the new parallel package, but I am having trouble
>> building the vignette. On my system, if I use the following minimal
>> vignette (call it buggyVignette.Rnw):
>> ? \documentclass[a4paper]{article}
>>
>> ? \title{Sweave Example 1}
>> ? \author{Rich Calaway}
>>
>> ? \begin{document}
>>
>> ? \maketitle
>>
>> ? In this example I try to run code using library parallel in a vignette:
>>
>> ? <<>>=
>> ? library(parallel)
>> ? cl <- makeCluster(3)
>> ? @
>>
>> ? and find that I get an error.
>>
>> ? \end{document}
>>
>> I get the following error when I try to build the package:
>>
>> ? C:\Users\richcalaway\RforgeDev\doparallel>C:\R\R-2.14.0\bin\R CMD build pkg
>> ? * checking for file 'pkg/DESCRIPTION' ... OK
>> ? * preparing 'doParallel':
>> ? * checking DESCRIPTION meta-information ... OK
>> ? * installing the package to re-build vignettes
>> ? * creating vignettes ...Warning in file(con, "r") :
>> ? ? ?cannot open file
>> 'C:\Users\RICHCA~1\AppData\Local\Temp\RtmpQlF1YN\xshell63892b
>> ? c4': Permission denied
>> ? Error in file(con, "r") : cannot open the connection
>> ? Execution halted
>>
>> If I simply comment out the line with the call to makeCluster, the
>> package (complete with vignette) builds. Also, I can use R CMD
>> Sweave/pdflatex together to produce a PDF without error. Has anyone
>> else encountered this problem, and if so, how did you fix it? I can
>> work around the problem if need be by converting the code chunk to a
>> LaTeX verbatim, but that doesn't seem very vignette-friendly.
>>
>
> I was able to reproduce your problem.
> When I added
> stopCluster(cl)
> to the vignette, it built just fine with R CMD build.
>
> Dan
>
>> Any help would be greatly appreciated. Below is my sessionInfo and my
>> current path
>>> sessionInfo()
>> R version 2.14.0 (2011-10-31)
>> Platform: i386-pc-mingw32/i386 (32-bit)
>>
>> locale:
>> [1] LC_COLLATE=English_United States.1252
>> [2] LC_CTYPE=English_United States.1252
>> [3] LC_MONETARY=English_United States.1252
>> [4] LC_NUMERIC=C
>> [5] LC_TIME=English_United States.1252
>>
>> attached base packages:
>> [1] stats ? ? graphics ?grDevices utils ? ? datasets ?methods ? base
>>
>> PATH=c:\Rtools214\bin;c:\Rtools214\MinGW\bin;c:\Rtools214\MinGW64\bin;C:\Ruby\bin;C:\Program
>> Files (x86)\MiKTeX 2.9\miktex\bin;C;\Windows\system32;
>>
>> Regards,
>>
>> Rich Calaway
>>
>> --
>> Rich Calaway
>> Documentation Manager
>> Revolution Analytics, Inc.
>> 1505 Westlake Ave North Suite 300
>> Seattle, WA 98109
>> richcalaway at revolutionanalytics.com
>> 206-456-6086?(Direct Phone)
>> 855-GET-REVO x6086 (Toll-free)
>>
>> ______________________________________________
>> R-devel at r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/r-devel



-- 
Rich Calaway
Documentation Manager
Revolution Analytics, Inc.
1505 Westlake Ave North Suite 300
Seattle, WA 98109
richcalaway at revolutionanalytics.com
206-456-6086 (Direct Phone)
855-GET-REVO x6086 (Toll-free)



[Rd] Vignette using parallel's makeCluster function has trouble building on Windows 7
Rich Calaway