Hello, I am a new user of BioConductor and would like to seek some guidance. I am trying to use the widgets option for enabling the user interface. I am trying to follow the Affy documentation. However I am getting an error saying library tkWidgets and widgetTools need to be loaded. I have installed the R1.6.1 version and have the tkwidgets library in it but the widgetTool library is missing. I have also tried to set the environment path for tcltk. Please can anyone of you let me know how and from where should I download the widgetTools library. > Data <- ReadAffy(widget=TRUE) Loading required package: tkWidgets Loading required package: widgetTools Error in eval(expr, envir, enclos) : Package widgetTools unavailable In addition: Warning message: There is no package called `widgetTools' in: library(package, char = TRUE, logical = TRUE, warn.conflicts = warn.conflicts, > library(tkWidgets) Loading required package: widgetTools Error in eval(expr, envir, enclos) : Package widgetTools unavailable In addition: Warning message: There is no package called `widgetTools' in: library(package, char = TRUE, logical = TRUE, warn.conflicts = warn.conflicts, Thanking you, Tapan Mehta Research Assistant Department of Biostatistics School of Public Health UAB

Hi, Which version of the Bioconductor software are you using? How did you get it? It might be nice to tell us what operating system you are working on too. All packages can be downloaded from the website, you would then need to install them. It looks like you somehow have gotten an incomplete download (this may be due to using the development version, rather than the release version). Robert On Thu, Jan 23, 2003 at 02:30:18PM -0800, Tapan Mehta wrote: > Hello, > > I am a new user of BioConductor and would like to seek > some guidance. I am trying to use the widgets option > for enabling the user interface. I am trying to follow > the Affy documentation. However I am getting an error > saying library tkWidgets and widgetTools need to be > loaded. I have installed the R1.6.1 version and have > the tkwidgets library in it but the widgetTool library > is missing. I have also tried to set the environment > path for tcltk. Please can anyone of you let me know > how and from where should I download the widgetTools > library. > > > Data <- ReadAffy(widget=TRUE) > > Loading required package: tkWidgets > > Loading required package: widgetTools > > Error in eval(expr, envir, enclos) : Package > widgetTools unavailable > > In addition: Warning message: > > There is no package called `widgetTools' in: > library(package, char = TRUE, logical = TRUE, > warn.conflicts = warn.conflicts, > > > library(tkWidgets) > > Loading required package: widgetTools > > Error in eval(expr, envir, enclos) : Package > widgetTools unavailable > > In addition: Warning message: > > There is no package called `widgetTools' in: > library(package, char = TRUE, logical = TRUE, > warn.conflicts = warn.conflicts, > > > > Thanking you, > Tapan Mehta > Research Assistant > Department of Biostatistics > School of Public Health > UAB > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > http://www.stat.math.ethz.ch/mailman/listinfo/bioconductor -- +--------------------------------------------------------------------- ------+ | Robert Gentleman phone : (617) 632-5250 | | Associate Professor fax: (617) 632-2444 | | Department of Biostatistics office: M1B20 | Harvard School of Public Health email: rgentlem@jimmy.dfci.harvard.edu | +--------------------------------------------------------------------- ------+

There was a bug in the vignette for widgetTools that prevented the package from being built. The bug was fixed and getBioC (isDevel = TRUE) should include widgetTools now. Jianhua >From: Tapan Mehta <tapmehta@yahoo.com> >To: bioconductor@stat.math.ethz.ch >MIME-Version: 1.0 >X-Virus-Scanned: by amavisd-milter (http://amavis.org/) >X-Virus-Scanned: by amavisd-milter (http://amavis.org/) >X-Spam-Status: No, hits=0.8 required=5.0 tests=SPAM_PHRASE_00_01 version=2.43 >X-Spam-Level: >Subject: [BioC] Enabling the widget option >X-BeenThere: bioconductor@stat.math.ethz.ch >X-Mailman-Version: 2.0.13 >List-Help: <mailto:bioconductor- request@stat.math.ethz.ch?subject="help"> >List-Post: <mailto:bioconductor@stat.math.ethz.ch> >List-Subscribe: <http: www.stat.math.ethz.ch="" mailman="" listinfo="" bioconductor="">, <mailto:bioconductor-request@stat.math.ethz.ch?subject=subscribe> >List-Id: The Bioconductor Project Mailing List <bioconductor.stat.math.ethz.ch> >List-Unsubscribe: <http: www.stat.math.ethz.ch="" mailman="" listinfo="" bioconductor="">, <mailto:bioconductor-request@stat.math.ethz.ch?subject=unsubscribe> >List-Archive: <http: www.stat.math.ethz.ch="" pipermail="" bioconductor=""/> >Date: Thu, 23 Jan 2003 14:30:18 -0800 (PST) > >Hello, > >I am a new user of BioConductor and would like to seek >some guidance. I am trying to use the widgets option >for enabling the user interface. I am trying to follow >the Affy documentation. However I am getting an error >saying library tkWidgets and widgetTools need to be >loaded. I have installed the R1.6.1 version and have >the tkwidgets library in it but the widgetTool library >is missing. I have also tried to set the environment >path for tcltk. Please can anyone of you let me know >how and from where should I download the widgetTools >library. > >> Data <- ReadAffy(widget=TRUE) > >Loading required package: tkWidgets > >Loading required package: widgetTools > >Error in eval(expr, envir, enclos) : Package >widgetTools unavailable > >In addition: Warning message: > >There is no package called `widgetTools' in: >library(package, char = TRUE, logical = TRUE, >warn.conflicts = warn.conflicts, > >> library(tkWidgets) > >Loading required package: widgetTools > >Error in eval(expr, envir, enclos) : Package >widgetTools unavailable > >In addition: Warning message: > >There is no package called `widgetTools' in: >library(package, char = TRUE, logical = TRUE, >warn.conflicts = warn.conflicts, > > > >Thanking you, >Tapan Mehta >Research Assistant >Department of Biostatistics >School of Public Health >UAB > >_______________________________________________ >Bioconductor mailing list >Bioconductor@stat.math.ethz.ch >http://www.stat.math.ethz.ch/mailman/listinfo/bioconductor

Hi , I tried doing using the function getBioC(isDevel = TRUE) but I am getting errors. I intially could work wit my affy package. Now the affy package is not present in my library. Please can yo let me know how should I unistall the current version of BioConductor libraries and install the new stable version of Bioconductor libraries. I have tried the following things; 1)ran the GetBioC.R script then did getBioC(isDevel= TRUE) 2)ran the GetBioC.R script then did getBioC(libName="al") 3)I also unistalled R and installed it again and did the step2 . > {pkg <- select.list(sort(.packages(all.available = TRUE))) + if(nchar(pkg)) library(pkg, character.only=TRUE)} > source("C:/Program Files/R/rw1061/GetBioC.R") > getBioC(libName="all") Running getBioC version 1.2.13 .... Please direct any concerns or questions to bioconductor@stat.math.ethz.ch. [1] "Getting/installing packages reposTools and Biobase" unable to connect to 'www.bioconductor.org'. Error in getPkgDisc(isDevel, version) : The url: http://www.bioconductor.org/repository/release1.1/package/PACKAGES does not seem to have a valid PACKAGES file. > I am now unable to work on the affy package functions which were working fine intially. Please guide me Thanking you, Tapan Mehta