From dtenenba at fhcrc.org  Tue Dec  6 01:50:27 2011
From: dtenenba at fhcrc.org (Dan Tenenbaum)
Date: Mon, 5 Dec 2011 16:50:27 -0800
Subject: [Rd] Vignette using parallel's makeCluster function has trouble
 building on Windows 7
In-Reply-To: <CA+_ZbMYoT0nxPJ7XnnGKjkWKvyEuaKXyjdKuMEmMJTEf+q6Ljg@mail.gmail.com>
References: <CA+_ZbMYoT0nxPJ7XnnGKjkWKvyEuaKXyjdKuMEmMJTEf+q6Ljg@mail.gmail.com>
Message-ID: <CAF42j22XfcTTtDn4e_7E7eT-o7nHH0CgpdLVA8a=Hqeo52+bDg@mail.gmail.com>

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



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