[BioC] Problem loading Rgraphviz

[Dan Tenenbaum]

On Mon, Sep 12, 2011 at 5:10 PM,  <ckingsley at tgen.org> wrote:
> Hello,
>
> I'm getting the same error others have gotten with Rgraphviz (v 1.27.0), but the previously posted solutions don't seem to be working:
>
>> library(Rgraphviz)
> Error : .onLoad failed in loadNamespace() for 'Rgraphviz', details:
>  call: value[[3L]](cond)
>  error: unable to load shared object 'C:/Users/ckingsley.TGEN/Documents/R/win-library/2.13/Rgraphviz/libs/x64/Rgraphviz.dll':
>  LoadLibrary failure:  %1 is not a valid Win32 application.
>
>
>  Check that (1) graphviz is installed on your system; (2) the installed version of graphviz matches '2.20.3'; this is the version used to build this Rgraphviz package; (3) graphviz is accessible to R, e.g., the
>  path to the graphviz 'bin' directory is in the system 'PATH' variable.  See additional instructions in the 'README' file of the Rgraphviz 'source' distribution, available at
>
>  http://bioconductor.org/packages/release/bioc/html/Rgraphviz.html
>
>  Ask further questions on the Bioconductor mailing list
>
>  http://bioconductor.org/docs/mailList.html
>
>
> Error: package/namespace load failed for 'Rgraphviz'
>
>
>
> I have installed graphviz 2.20.3.1 and the PATH environmental variable contains the path to the bin directory:
>
>> grep("Graphviz", strsplit(Sys.getenv("PATH"), ";")[[1]], value=T)
> [1] "C:\\Program Files (x86)\\Graphviz2.20\\bin<file:///\\Graphviz2.20\bin>"

This path item looks kind of wacky to me. What happens if you type
neato -V
at the command line?

>
>> list.files("C:\\Program Files (x86)\\Graphviz2.20\\bin<file:///\\Graphviz2.20\bin>")
> [1] "acyclic.exe"                    "bcomps.exe"                     "ccomps.exe"                     "circo.exe"                      "comdlg32.ocx"                   "diffimg.exe"                    "dijkstra.exe"
>  [8] "dot.exe"                        "dot2gxl.exe"                    "dotty.exe"                      "fc-cache.exe"                   "fc-cat.exe"                     "fc-list.exe"                    "fc-match.exe"
> [15] "fdp.exe"                        "gc.exe"                         "gv2gxl.exe"                     "gvcolor.exe"                    "GVedit.exe"                     "gvpack.exe"                     "gvpr.exe"
> [22] "GVUI.exe"                       "gxl2dot.exe"                    "gxl2gv.exe"                     "iconv.dll"                      "intl.dll"                       "jpeg62.dll"                     "lefty.exe"
> [29] "libcairo-2.dll"                 "libcdt-4.dll"                   "libcgraph-4.dll"                "libexpat.dll"                   "libfontconfig-1.dll"            "libfreetype-6.dll"              "libgdk_pixbuf-2.0-0.dll"
> [36] "libglib-2.0-0.dll"              "libgmodule-2.0-0.dll"           "libgobject-2.0-0.dll"           "libgraph-4.dll"                 "libgvc-4.dll"                   "libgvplugin_core-5.dll"         "libgvplugin_dot_layout-5.dll"
> [43] "libgvplugin_gd-5.dll"           "libgvplugin_neato_layout-5.dll" "libgvplugin_pango-5.dll"        "libltdl-3.dll"                  "libpango-1.0-0.dll"             "libpangocairo-1.0-0.dll"        "libpangoft2-1.0-0.dll"
> [50] "libpangowin32-1.0-0.dll"        "libpathplan-4.dll"              "libpng12.dll"                   "libxml2.dll"                    "lneato.exe"                     "mm2gv.exe"                      "neato.exe"
> [57] "nop.exe"                        "props.txt"                      "prune.exe"                      "sccmap.exe"                     "settings.ini"                   "tred.exe"                       "twopi.exe"
> [64] "unflatten.exe"                  "zlib1.dll"
>
> And the Rgraphviz.dll is present in the correct directory:
>
>> list.files("C:/Users/ckingsley.TGEN/Documents/R/win-library/2.13/Rgraphviz/libs/x64/")
> [1] "Rgraphviz.dll"
>
> I'm running 64 bit R 2.13.0 on Windows 7 Professional x64.

For 64-bit windows try grabbing the prebuilt binary of graphviz
referred to here:
https://stat.ethz.ch/pipermail/bioconductor/2010-October/036011.html

Note that this does not include all the executables but it does have
the libraries that Rgraphviz needs to run against.

Dan

>
> Thanks in advance.
>
> __________________________________________
>
> Christopher Kingsley, PhD
> Research Assistant Professor
> Diabetes, Cardiovascular & Metabolic Disease Division
> TGen, The Translational Genomics Research Institute
>
>
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