[R--gR] installing Rgraphviz on mac

[Achim Zeileis]

On Fri, 5 Jun 2009, Alex Biedermann wrote:

> Dear gRaphical models members
>
> I am not sure if I'd better address my question to the Mac Port SIG.
> I am trying to get Rgraphviz running on a mac ppc vers. 10.4.11.
> The installation process doesn't complete successfully.
> Graphviz is already installed and should be
> at /usr/local/graphviz-2.14 on my machine,
> but it seems that when installing Rgraphviz, Graphviz
> can't be found. Can I tell it so
> manually?

Yes, as the configure output says, there is the option
   --with-graphviz

See also the README file in the Rgraphviz source package. It comments both 
on installation under Mac OSX and on installation from source.

hth,
Z

> Or, do you see any other way to get
> it running properly?
>
> Thanks a lot in advance.
>
> Alex
>
>> biocLite("Rgraphviz",depend=TRUE,type="source")
> Running biocinstall version 2.4.10 with R version 2.9.0
> Your version of R requires version 2.4 of Bioconductor.
> versuche URL 
> 'http://bioconductor.org/packages/2.4/bioc/src/contrib/Rgraphviz_1.22.1.tar.gz'
> Content type 'application/x-gzip' length 569867 bytes (556 Kb)
> URL ge"offnet
> ==================================================
> downloaded 556 Kb
>
> * Installing *source* package 'Rgraphviz' ...
> checking for gcc... gcc
> checking for C compiler default output file name... a.out
> checking whether the C compiler works... yes
> checking whether we are cross compiling... no
> checking for suffix of executables...
> checking for suffix of object files... o
> checking whether we are using the GNU C compiler... yes
> checking whether gcc accepts -g... yes
> checking for gcc option to accept ISO C89... none needed
> checking how to run the C preprocessor... gcc -E
> checking for grep that handles long lines and -e... /usr/bin/grep
> checking for egrep... /usr/bin/grep -E
> checking for ANSI C header files... yes
> checking for sys/types.h... yes
> checking for sys/stat.h... yes
> checking for stdlib.h... yes
> checking for string.h... yes
> checking for memory.h... yes
> checking for strings.h... yes
> checking for inttypes.h... yes
> checking for stdint.h... yes
> checking for unistd.h... yes
> checking for stdbool.h that conforms to C99... yes
> checking for _Bool... yes
> checking for whether compiler has bool... yes
> configure: No --with-graphviz option was specified. Trying to find Graphviz 
> using other methods.
> checking for pkg-config... no
> checking for dotneato-config... no
> configure: dotneato-config not found in PATH.
> configure: Using default directory /usr/local, consider specifiying 
> --with-graphviz
> configure: error: /usr/local/bin/dot not found.  Check Graphviz installation.
> Fehler: configuration failed f"ur Paket 'Rgraphviz'
> * Removing 
> '/Library/Frameworks/R.framework/Versions/2.9/Resources/library/Rgraphviz'
> * Restoring previous 
> '/Library/Frameworks/R.framework/Versions/2.9/Resources/library/Rgraphviz'
>
> The downloaded packages are in
>       '/private/tmp/RtmpnpndCY/downloaded_packages'
> Updating HTML index of packages in '.Library'
> Warning message:
> In install.packages(pkgs = pkgs, repos = repos, dependencies = dependencies, 
> :
> installation of package 'Rgraphviz' had non-zero exit status
>
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