I am trying to install bioconductor in a R version for Mac os X. It seems as been installed, but when i try to run Affy package i get: > library(affy) Welcome to Bioconductor Vignettes contain introductory material. To view, simply type: openVignette() For details on reading vignettes, see the openVignette help page. Synching your local package management information ... Error in file(file, "wb") : unable to open connection In addition: Warning message: cannot open file `/Applications/StartR.app/RAqua.app/Contents/library/liblisting.Rda' Error in f(libname, pkgname) : Package reposTools required In addition: Warning message: package:reposTools is required by package:affy (still attached) in: detach(name = "package:reposTools") Synching your local package management information ... Warning message: package:Biobase is required by package:affy (still attached) in: detach(name = "package:Biobase") Error in file(file, "wb") : unable to open connection In addition: Warning message: cannot open file `/Applications/StartR.app/RAqua.app/Contents/library/liblisting.Rda' Warning message: package:reposTools is required by package:affy (still attached) in: detach(name = "package:reposTools") > > Data <- ReadAffy(widget=TRUE) Loading required package: tkWidgets Attaching package 'DynDoc': The following object(s) are masked from package:base : vignette Loading required package: tcltk Error in fun(...) : this isn't a Tk applicationcouldn't connect to display ":0" Error in runHook(".onLoad", env, package.lib, package) : .onLoad failed Error in f(libname, pkgname) : Package tcltk not able to be loaded! Error in fileBrowser(textToShow = "Choose CEL files", testFun = hasSuffix("[cC][eE][lL]")) : couldn't find function "tktoplevel" In addition: Warning message: package:widgetTools is required by package:tkWidgets (still attached) in: detach(name = "package:widgetTools") Error in end() : couldn't find function "tkdestroy" > Would somebody like to explain me what is wrong? Sorry i am boring you with sure is a naive question, but i am new in R and bioconductor Thanks Edmundo R

What version of BioC are you using? Those errors look like what you get if you are running R > 1.8.0 with BioC < 1.3. Did you use getBioC()? Jim James W. MacDonald Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623 >>> Edmundo Rodr?guez <edmundo.rodriguez@ucr.edu> 12/12/03 02:52PM >>> I am trying to install bioconductor in a R version for Mac os X. It seems as been installed, but when i try to run Affy package i get: > library(affy) Welcome to Bioconductor Vignettes contain introductory material. To view, simply type: openVignette() For details on reading vignettes, see the openVignette help page. Synching your local package management information ... Error in file(file, "wb") : unable to open connection In addition: Warning message: cannot open file `/Applications/StartR.app/RAqua.app/Contents/library/liblisting.Rda' Error in f(libname, pkgname) : Package reposTools required In addition: Warning message: package:reposTools is required by package:affy (still attached) in: detach(name = "package:reposTools") Synching your local package management information ... Warning message: package:Biobase is required by package:affy (still attached) in: detach(name = "package:Biobase") Error in file(file, "wb") : unable to open connection In addition: Warning message: cannot open file `/Applications/StartR.app/RAqua.app/Contents/library/liblisting.Rda' Warning message: package:reposTools is required by package:affy (still attached) in: detach(name = "package:reposTools") > > Data <- ReadAffy(widget=TRUE) Loading required package: tkWidgets Attaching package 'DynDoc': The following object(s) are masked from package:base : vignette Loading required package: tcltk Error in fun(...) : this isn't a Tk applicationcouldn't connect to display ":0" Error in runHook(".onLoad", env, package.lib, package) : .onLoad failed Error in f(libname, pkgname) : Package tcltk not able to be loaded! Error in fileBrowser(textToShow = "Choose CEL files", testFun = hasSuffix("[cC][eE][lL]")) : couldn't find function "tktoplevel" In addition: Warning message: package:widgetTools is required by package:tkWidgets (still attached) in: detach(name = "package:widgetTools") Error in end() : couldn't find function "tkdestroy" > Would somebody like to explain me what is wrong? Sorry i am boring you with sure is a naive question, but i am new in R and bioconductor Thanks Edmundo R _______________________________________________ Bioconductor mailing list Bioconductor@stat.math.ethz.ch https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor