On 12/20/2010 6:29 AM, Mary Putt wrote: > Thank you Martin I very much appreciate your help. > Here are the results of your suggestion. > >> Sys.getenv("PATH") > > PATH "C:\\Program Files\\Insightful\\splus80\\;C:\\Program > Files\\Business Objects\\common\\3.5\\bin\\NOTES\\;C:\\Program > Files\\Business Objects\\common\\3.5\\bin\\NOTES\\DATA\\;\"C:\\Program > Files\\Symantec\\Norton Ghost 2003\\\";C:\\Program Files\\Microsoft > SQL > Server\\80\\Tools\\Binn\\;C:\\WINDOWS\\system32;C:\\WINDOWS;C:\\WIND OWS\\System32\\Wbem;C:\\Program > Files\\Kerberos\\;C:\\Program Files\\QuickTime\\QTSystem\\;C:\\Program > Files\\Common Files\\Roxio Shared\\DLLShared\\;C:\\Program > Files\\Common Files\\Roxio Shared\\9.0\\DLLShared\\;C:\\Program > Files\\SAS\\SharedFiles\\Formats;C:\\Program > Files\\MATLAB\\R2009b\\runtime\\win32;C:\\Program > Files\\MATLAB\\R2009b\\bin;\"C:\\Program Files\\Mplus\\\"" >> list.files() > [1] "Default.rdp" "desktop.ini" > "Downloads" "Enterprise Guide Sample.lnk" "HP LJ > 3005" "HP LJ 4250" [7] > "kaplan" "log" > "MATLAB" "My Albums" "My > Business Objects Documents" "My Cytel Files" [13] "My > Music" "My Pictures" "My SAS > Files" "My Videos" > "NCSS" "New Folder" [19] > "output_remove_11.Rdata" "output_single_11.Rdata" > "RECYCLER" "S-PLUS Projects" > "SafeNet Sentinel" "System Volume Information" [25] > "VIM_8.pdf" >> getwd() > [1] "D:/" Hi Mary -- Follow the instructions in the original error message > 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 The README file says that you need to download and install http://www.graphviz.org/pub/graphviz/stable/windows/graphviz-2.20.3.1. msi and then add the path to the 'bin' directory of the installation to your system's PATH variable (Control Panels -> System -> Advanced Settings -> Environment Variables, then 'new' or 'edit' a user variable to be named PATH as a semi-colon separated list of directory paths. When I did this and restarted R, I saw in part > Sys.getenv("PATH") "<...>;C:\\Program Files (x86)\\Graphviz2.20\\bin;<...>" where <...> are other paths not relevant to Rgraphviz, the the path that I have might differ from the path that you have. To ensure that I had entered the right PATH, I then did > list.files("C:\\Program Files (x86)\\Graphviz2.20\\bin") [1] "acyclic.exe" "bcomps.exe" [3] "ccomps.exe" "circo.exe" [5] "comdlg32.ocx" "diffimg.exe" [7] "dijkstra.exe" "dot.exe" [9] "dot2gxl.exe" "dotty.exe" and so on. With graphviz correctly installed, I was then able to > biocLite('Rgraphviz') Best of luck, Martin > > > > To: Mary Putt <mputt at="" mail.med.upenn.edu=""> > Cc: bioconductor at r-project.org > Subject: Re: [BioC] Rgraphviz installation failure with R 2.12.0 > Message-ID: <4D0B8FB8.1010605 at fhcrc.org> > Content-Type: text/plain; charset=ISO-8859-1 > > On 12/17/2010 06:48 AM, Mary Putt wrote: > >> > I have the same installation problems on two 32 bit computers running >> > Windows 7 or Windows XP. and R 2.12.0 >> > > The shared object RGraphviz.dll is where it is supposed to be. >> > > Any suggestions greatly appreciated. >> > > Thank you >> > > Mary >> > >>> >> biocLite("Rgraphviz") >> > Using R version 2.12.0, biocinstall version 2.7.4. >> > Installing Bioconductor version 2.7 packages: >> > [1] "Rgraphviz" >> > Please wait... >> > > trying URL >> > >> 'http://www.bioconductor.org/packages/2.7/bioc/bin/windows/contrib/ 2.12/Rgraphviz_1.28.0.zip' >> > > Content type 'application/zip' length 1065188 bytes (1.0 Mb) >> > opened URL >> > downloaded 1.0 Mb >> > > package 'Rgraphviz' successfully unpacked and MD5 sums checked >> > > The downloaded packages are in >> > C:\Documents and Settings\mputt\Local >> > Settings\Temp\Rtmpi20FRB\downloaded_packages >> > >>> >> library("Rgraphviz") >> > Error : .onLoad failed in loadNamespace() for 'Rgraphviz', details: >> > call: value[[3L]](cond) >> > error: unable to load shared object >> > 'C:/PROGRA~1/R/R-212~1.0/library/Rgraphviz/libs/i386/Rgraphviz.dll': >> > LoadLibrary failure: The specified module could not be found. > > Hi Mary -- the cryptic error message is saying that "I tried to load > Rgraphviz.dll, but could not, because something Rgraphviz.dll depends on > could not be found'. Can you show us (e.g., Sys.getenv('PATH') and > list.files()) that you've done these things correctly: > > >> > 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 think this should be sufficient on 32-bit systems; for 64-bit systems > you'll have to read the README file indicated above. > > Martin > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor -- Dr. Martin Morgan, PhD Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109