[BioC] Rgraphviz installation problem on " chmod: cannot access '~/library/Rgraphviz/libs/*': No such file or directory"

[Amin Moghaddasi]

Dear All,
 
I have some problem installing Rgraphgviz on my system with the
following specification. 

My system is Suse 9.2 , i386 GNU/Linux
I have installed graphviz-2.14.1 from source
I have gcc version 3.3.4 (pre 3.3.5 20040809)
I also set the LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/usr/local/lib/graphviz
R version 2.4.1 (2006-12-18)

1 - When I try to install from bash command, I'll get the following
error:
> R CMD INSTALL Rgraphviz_1.5.0.tar.gz
* Installing *source* package 'Rgraphviz' ...
checking for graphviz... checking for dotneato-config... not found
failed
configure: error: please specify a valid path to 'dotneato-config'
version >= 1.12 using --with-graphviz=DIR
ERROR: configuration failed for package 'Rgraphviz'
** Removing '/home/bkp-moghadda/lib/R/library/Rgraphviz'

2 - using biocLite in R gives another error:
> source("http://bioconductor.org/biocLite.R")
Warning messages:
1: Redefining ‘biocinstall’ in: safeSource()
2: Redefining ‘biocinstall.affyPkgs’ in: safeSource()
3: Redefining ‘biocinstall.allPkgs’ in: safeSource()
4: Redefining ‘biocinstall.defaultPkgs’ in: safeSource()
5: Redefining ‘biocinstall.graphPkgs’ in: safeSource()
6: Redefining ‘biocinstall.litePkgs’ in: safeSource()
7: Redefining ‘biocinstall.monographPkgs’ in: safeSource()
> biocLite("Rgraphviz")
Running biocinstall version 1.9.9 with R version 2.4.1
Your version of R requires version 1.9 of Bioconductor.
Warning in install.packages(pkgs = pkgs, repos = repos, dependencies =
dependencies,  :
         argument 'lib' is missing:
using /home/bkp-moghadda/lib/R/library
trying URL
'http://bioconductor.org/packages/1.9/bioc/src/contrib/Rgraphviz_1.12.3.tar.gz'
Content type 'application/x-gzip' length 1504829 bytes
opened URL
==================================================
downloaded 1469Kb

* Installing *source* package 'Rgraphviz' ...
checking for pkg-config... /usr/local/bin/pkg-config
configure: Found graphviz 2.14.1
configure: creating ./config.status
config.status: creating src/Makevars
** libs
gcc -std=gnu99 -I/usr/lib/R/include -I/usr/lib/R/include
-I/usr/local/include/graphviz    -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=14
-I/usr/local/include    -fpic   -c Rgraphviz.c -o Rgraphviz.o
In file included from /usr/local/include/graphviz/gvc.h:20,
                 from common.h:38,
                 from Rgraphviz.c:1:
/usr/local/include/graphviz/types.h:27:1: warning: "TRUE" redefined
In file included from common.h:8,
                 from Rgraphviz.c:1:
/usr/lib/R/include/Rdefines.h:148:1: warning: this is the location of
the previous definition
In file included from Rgraphviz.c:1:
common.h:42:20: gvcint.h: No such file or directory
common.h:43:21: globals.h: No such file or directory
Rgraphviz.c: In function `getListElement':
Rgraphviz.c:51: warning: implicit declaration of function `Rf_type2char'
Rgraphviz.c: In function `Rgraphviz_graphvizVersion':
Rgraphviz.c:1042: error: dereferencing pointer to incomplete type
make: *** [Rgraphviz.o] Error 1
chmod: cannot access
`/home/bkp-moghadda/lib/R/library/Rgraphviz/libs/*': No such file or
directory
ERROR: compilation failed for package 'Rgraphviz'
** Removing '/home/bkp-moghadda/lib/R/library/Rgraphviz'

The downloaded packages are in
        /tmp/Rtmpmnucc7/downloaded_packages
Warning messages:
1: installation of package 'Rgraphviz' had non-zero exit status in:
install.packages(pkgs = pkgs, repos = repos, dependencies =
dependencies,
2: cannot create HTML package index in:
tools:::unix.packages.html(.Library)

I would be much appreciated if someone can help me to figure out where
the problem is.

Regards,
Amin.