On 07/25/2011 07:58 AM, Ram H. Sharma wrote: > Hi All > > How can I adjust this path. My current path of Graphviz installation is: > > C:\Program Files (x86)\Graphviz2.20\bin > > and Rgraphviz is > > C:\R\library\Rgraphviz\libs\i386 > > Please help me. I am new to Rgraphviz. PATH is an environment variable. From the R FAQ for Windows http://cran.fhcrc.org/bin/windows/base/rw-FAQ.html#How-do-I-set- environment-variables_003f "For all applications via Windows. How you set an environment variable is system specific: under Windows 2000/XP/Server 2003 you can use `System' in the control panel or the properties of `My Computer' (under the `Advanced' tab). Under Vista/7, go to `User Accounts' in the Control Panel, and select your account and then `Change my environment variables'." Create a 'New' user variable named PATH, with value C:\Program Files (x86)\Graphviz2.20\bin If a value already exists for PATH, add the above, separated by a semicolon ;. Restart R and check that the path is set correctly path <- strsplit(Sys.getenv("PATH"), ";")[[1]] dir(path[grepl("Graphviz2.20", path)]) should return several file names, including, e.g., libgraph-4.dll. Install Rgraphviz with source("http://bioconductor.org/biocLite.R") biocLite('Rgraphviz") > > Ram > > > > > "your Windows system 'PATH' variable needs to be adjusted once you've > installed graphviz and before installing Rgraphviz" > > ---------- Forwarded message ---------- > From: Martin Morgan<mtmorgan at="" fhcrc.org=""> > Date: Mon, Jul 25, 2011 at 9:25 AM > Subject: Re: [R] Rgraphviz installation problem > To: "Ram H. Sharma"<sharma.ram.h at="" gmail.com=""> > Cc: r-help at r-project.org > > > On 07/25/2011 06:05 AM, Ram H. Sharma wrote: > >> Dear experts >> >> I installed Rgraphviz with the following command: >> >> >> source("http://www.**bioconductor.org/biocLite.R<http: www.biocond="" uctor.org="" bioclite.r=""> >> ") >> >> biocLite("Rgraphviz") >> >> >> But had a problem when I tried to load it. >> >> This says that libcdt-4.dll is missing in your computer and the following >> message in R window: >> >> library("Rgraphviz") >>> >> Loading required package: graph >> Loading required package: grid >> Error : .onLoad failed in loadNamespace() for 'Rgraphviz', details: >> call: value[[3L]](cond) >> error: unable to load shared object >> 'C:/R/library/Rgraphviz/libs/**i386/Rgraphviz.dll': >> LoadLibrary failure: The specified module could not be found. >> >> >> Check that (1) graphviz is installed on your system; (2) the >> > > you need to install graphviz, as well as Rgraphviz. > > > installed version of graphviz matches '2.20.3'; this is the version >> used to build this Rgraphviz package; (3) graphviz is accessible to >> > > graphviz has to be a specific version. > > > R, e.g., the path to the graphviz 'bin' directory is in the system >> 'PATH' variable. See additional instructions in the 'README' file of >> > > your Windows system 'PATH' variable needs to be adjusted once you've > installed graphviz and before installing Rgraphviz > > > the Rgraphviz 'source' distribution, available at >> >> http://bioconductor.org/**packages/release/bioc/html/**Rgraphviz .html<http: bioconductor.org="" packages="" release="" bioc="" html="" rgraphviz.htm="" l=""> >> > > additional details are at the url above. For instance, the specific version > of graphviz required is > > http://www.graphviz.org/pub/**graphviz/stable/windows/** > graphviz-2.20.3.1.msi<http: www.graphviz.org="" pub="" graphviz="" stable="" wi="" ndows="" graphviz-2.20.3.1.msi=""> > > > Ask further questions on the Bioconductor mailing list >> >> http://bioconductor.org/docs/**mailList.html<http: bioconductor="" .org="" docs="" maillist.html=""> >> > > if you have more questions, ask on the Bioconductor mailing list. > > Martin > > > >> Error: package/namespace load failed for 'Rgraphviz' >> >> >> Help me please. >> >> >> > -- Computational Biology Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109 Location: M1-B861 Telephone: 206 667-2793

Hi Martin Thank you for help, that helped me to come out the problem ! On Mon, Jul 25, 2011 at 11:46 AM, Martin Morgan <mtmorgan@fhcrc.org> wrote: > On 07/25/2011 07:58 AM, Ram H. Sharma wrote: > >> Hi All >> >> How can I adjust this path. My current path of Graphviz installation is: >> >> C:\Program Files (x86)\Graphviz2.20\bin >> >> and Rgraphviz is >> >> C:\R\library\Rgraphviz\libs\**i386 >> >> Please help me. I am new to Rgraphviz. >> > > PATH is an environment variable. From the R FAQ for Windows > > http://cran.fhcrc.org/bin/**windows/base/rw-FAQ.html#How-** > do-I-set- environment-**variables_003f<http: cran.fhcrc.org="" bin="" windows="" base="" rw-faq.html#how-do-i-set-environment-variables_003f=""> > > "For all applications via Windows. How you set an environment variable is > system specific: under Windows 2000/XP/Server 2003 you can use `System' in > the control panel or the properties of `My Computer' (under the `Advanced' > tab). Under Vista/7, go to `User Accounts' in the Control Panel, and select > your account and then `Change my environment variables'." > > Create a 'New' user variable named PATH, with value > > > C:\Program Files (x86)\Graphviz2.20\bin > > If a value already exists for PATH, add the above, separated by a semicolon > ;. Restart R and check that the path is set correctly > > path <- strsplit(Sys.getenv("PATH"), ";")[[1]] > dir(path[grepl("Graphviz2.20", path)]) > > should return several file names, including, e.g., libgraph-4.dll. Install > Rgraphviz with > > source("http://bioconductor.**org/biocLite.R<http: bioconductor.or="" g="" bioclite.r=""> > ") > biocLite('Rgraphviz") > > >> Ram >> >> >> >> >> "your Windows system 'PATH' variable needs to be adjusted once you've >> installed graphviz and before installing Rgraphviz" >> >> ---------- Forwarded message ---------- >> From: Martin Morgan<mtmorgan@fhcrc.org> >> Date: Mon, Jul 25, 2011 at 9:25 AM >> Subject: Re: [R] Rgraphviz installation problem >> To: "Ram H. Sharma"<sharma.ram.h@gmail.com**> >> Cc: r-help@r-project.org >> >> >> On 07/25/2011 06:05 AM, Ram H. Sharma wrote: >> >> Dear experts >>> >>> I installed Rgraphviz with the following command: >>> >>> >>> source("http://www.**bioconduc**tor.org/biocLite.R<http: biocondu="" ctor.org="" bioclite.r=""> >>> <http: www.**bioconductor.org="" bioclite.r<http:="" www.bioconductor.="" org="" bioclite.r=""> >>> > >>> >>> ") >>> >>> biocLite("Rgraphviz") >>> >>> >>> But had a problem when I tried to load it. >>> >>> This says that libcdt-4.dll is missing in your computer and the following >>> message in R window: >>> >>> library("Rgraphviz") >>> >>>> >>>> Loading required package: graph >>> Loading required package: grid >>> Error : .onLoad failed in loadNamespace() for 'Rgraphviz', details: >>> call: value[[3L]](cond) >>> error: unable to load shared object >>> 'C:/R/library/Rgraphviz/libs/****i386/Rgraphviz.dll': >>> LoadLibrary failure: The specified module could not be found. >>> >>> >>> Check that (1) graphviz is installed on your system; (2) the >>> >>> >> you need to install graphviz, as well as Rgraphviz. >> >> >> installed version of graphviz matches '2.20.3'; this is the version >> >>> used to build this Rgraphviz package; (3) graphviz is accessible to >>> >>> >> graphviz has to be a specific version. >> >> >> R, e.g., the path to the graphviz 'bin' directory is in the system >> >>> 'PATH' variable. See additional instructions in the 'README' file of >>> >>> >> your Windows system 'PATH' variable needs to be adjusted once you've >> installed graphviz and before installing Rgraphviz >> >> >> the Rgraphviz 'source' distribution, available at >> >>> >>> http://bioconductor.org/****packages/release/bioc/html/**** >>> Rgraphviz.html<http: bioconductor.org="" **packages="" release="" bioc="" htm="" l="" **rgraphviz.html=""> >>> <http: **bioconductor.org="" packages="" **release="" bioc="" html="" rgraphviz.="" **html<http:="" bioconductor.org="" packages="" release="" bioc="" html="" rgraphviz.ht="" ml=""> >>> > >>> >>> >> additional details are at the url above. For instance, the specific >> version >> of graphviz required is >> >> http://www.graphviz.org/pub/****graphviz/stable/windows/**<http: www.graphviz.org="" pub="" **graphviz="" stable="" windows="" **=""> >> graphviz-2.20.3.1.msi<http: **www.graphviz.org="" pub="" graphviz="" **="">> stable/windows/graphviz-2.20.**3.1.msi<http: www.graphviz.org="" pub="" graphviz="" stable="" windows="" graphviz-2.20.3.1.msi=""> >> > >> >> >> >> Ask further questions on the Bioconductor mailing list >> >>> >>> http://bioconductor.org/docs/****mailList.html<http: bioconduct="" or.org="" docs="" **maillist.html=""> >>> <http: **bioconductor.org="" docs="" **maillist.html<http:="" bioconducto="" r.org="" docs="" maillist.html=""> >>> > >>> >>> >> if you have more questions, ask on the Bioconductor mailing list. >> >> Martin >> >> >> >> Error: package/namespace load failed for 'Rgraphviz' >>> >>> >>> Help me please. >>> >>> >>> >>> >> > > -- > Computational Biology > Fred Hutchinson Cancer Research Center > 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109 > > Location: M1-B861 > Telephone: 206 667-2793 > -- Ram H [[alternative HTML version deleted]]