Dear Sir/Madam, I have recently started using R software on a windows 2000 system. I'm trying to install BioConductor but I got the following error message when running getBioC > getBioC() Running getBioC version 1.2.41.... If you encounter problems, first make sure that you are running the latest version of getBioC() which can be found at: www.bioconductor.org/getBioC.R Please direct any concerns or questions to bioconductor@stat.math.ethz.ch. Error in getBioC() : Your R can not connect to the Bioconductor website, which is required for getBioc to work properly. The most likely cause of this is the internet configuration of R > I have also tried to install it from the RGui menu packages but it didn't work neither: > local({a<- CRAN.packages(CRAN=getOption("BIOC")) + install.packages(select.list(a[,1],,TRUE), .libPaths()[1], available=a, CRAN=getOption("BIOC"))}) trying URL `http://www.bioconductor.org/bin/windows/contrib/1.7/PACKAGES' unable to resolve 'www.bioconductor.org'. Error in download.file(url = paste(contriburl, "PACKAGES", sep = "/"), : cannot open URL `http://www.bioconductor.org/bin/windows/contrib/1.7/PACKAGES' > My internet connection is working fine and I can access to the web sites that R is trying to connect. I have downloaded the packages and tried to install it using the packages menu again but using the option: packages from local zip files, > install.packages(choose.files('',filters=Filters[c('zip','All'),]), .libPaths()[1], CRAN = NULL) Error in file(file, "r") : unable to open connection In addition: Warning messages: 1: error -1 in extracting from zip file 2: cannot open file `Bioconductor/DESCRIPTION' > As well, I can unzip the packages using software such as winzip. Could you please tell me if I'm missing something or if I'm doing something wrong? Many thanks Javi Veterinary Laboratories Agency (VLA) This email and any attachments is intended for the named recipient only. Its unauthorised use, disclosure, storage or copying is not permitted. If you have received it in error, please destroy all copies and inform the sender. Whilst this email and associated attachments will have been checked for known viruses whilst within VLA systems we can accept no responsibility once it has left our systems. Communications on VLA's computer systems may be monitored and/or recorded to secure the effective operation of the system and for other lawful purposes. [[alternative HTML version deleted]]

Hi I think what you need to do is start R thus: Rgui.exe --internet2 Or something similar. If you change your shortcut to point to: "C:\path\to\R\Rgui.exe" --internet2 Then R should be able to access the internet (NOTE the location of the " marks is important) Mick -----Original Message----- From: Nunez-Garcia, Javier [mailto:j.nunez@vla.defra.gsi.gov.uk] Sent: 16 September 2003 10:53 To: 'bioconductor@stat.math.ethz.ch' Subject: [BioC] installing BioConductor Dear Sir/Madam, I have recently started using R software on a windows 2000 system. I'm trying to install BioConductor but I got the following error message when running getBioC > getBioC() Running getBioC version 1.2.41.... If you encounter problems, first make sure that you are running the latest version of getBioC() which can be found at: www.bioconductor.org/getBioC.R Please direct any concerns or questions to bioconductor@stat.math.ethz.ch. Error in getBioC() : Your R can not connect to the Bioconductor website, which is required for getBioc to work properly. The most likely cause of this is the internet configuration of R > I have also tried to install it from the RGui menu packages but it didn't work neither: > local({a<- CRAN.packages(CRAN=getOption("BIOC")) + install.packages(select.list(a[,1],,TRUE), .libPaths()[1], available=a, CRAN=getOption("BIOC"))}) trying URL `http://www.bioconductor.org/bin/windows/contrib/1.7/PACKAGES' unable to resolve 'www.bioconductor.org'. Error in download.file(url = paste(contriburl, "PACKAGES", sep = "/"), : cannot open URL `http://www.bioconductor.org/bin/windows/contrib/1.7/PACKAGES' > My internet connection is working fine and I can access to the web sites that R is trying to connect. I have downloaded the packages and tried to install it using the packages menu again but using the option: packages from local zip files, > install.packages(choose.files('',filters=Filters[c('zip','All'),]), .libPaths()[1], CRAN = NULL) Error in file(file, "r") : unable to open connection In addition: Warning messages: 1: error -1 in extracting from zip file 2: cannot open file `Bioconductor/DESCRIPTION' > As well, I can unzip the packages using software such as winzip. Could you please tell me if I'm missing something or if I'm doing something wrong? Many thanks Javi Veterinary Laboratories Agency (VLA) This email and any attachments is intended for the named recipient only. Its unauthorised use, disclosure, storage or copying is not permitted. If you have received it in error, please destroy all copies and inform the sender. Whilst this email and associated attachments will have been checked for known viruses whilst within VLA systems we can accept no responsibility once it has left our systems. Communications on VLA's computer systems may be monitored and/or recorded to secure the effective operation of the system and for other lawful purposes. [[alternative HTML version deleted]] _______________________________________________ Bioconductor mailing list Bioconductor@stat.math.ethz.ch https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor

> I have also tried to install it from the RGui menu packages but it didn't > work neither: Can you access the CRAN packages from Rgui?