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Question: Installing Packages from Bioconductor: Error
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gravatar for Eric.Grund@serono.com
12.4 years ago by
Eric.Grund@serono.com20 wrote:
Hi Everyone. I am a R and Bioconductor novice. On the R GUI when under packages I click "install packages from bioconductor" I get this message: > local({a<- CRAN.packages(CRAN=getOption("BIOC")) + install.packages(select.list(a[,1],,TRUE), .libPaths()[1], available=a, CRAN=getOption("BIOC"), dependencies=TRUE)}) trying URL `http://www.bioconductor.org/bin/windows/contrib/2.0/PACKAGES' Error in download.file(url = paste(contriburl, "PACKAGES", sep = "/"), : cannot open URL `http://www.bioconductor.org/bin/windows/contrib/2.0/PACKAGES' In addition: Warning message: unable to connect to 'www.bioconductor.org' on port 80. Any suggestions are appreciated? Thanks. Eric. Post-doc Serono Massachusetts ********************************************************************** ********************** S - This message contains confidential information and is in...{{dropped}}
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ADD COMMENTlink modified 12.4 years ago by Ron Ophir270 • written 12.4 years ago by Eric.Grund@serono.com20
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gravatar for Arne.Muller@aventis.com
12.4 years ago by
Arne.Muller@aventis.com620 wrote:
Hi Eric, Maybe you're behind firewall that needs authentification? In this case you may have to start R as "C:\Program Files\R\rw1090\bin\Rgui.exe" --internet2 right-click on the R-icon on your desktop and modify the properties to use --internet2 (this uses the same internet connection API as internet explorer, i.e. everything should be as if you were conneting to the web like in ie). regards, Arne > -----Original Message----- > From: bioconductor-bounces@stat.math.ethz.ch > [mailto:bioconductor-bounces@stat.math.ethz.ch]On Behalf Of > Eric.Grund@serono.com > Sent: 30 November 2004 14:47 > To: bioconductor@stat.math.ethz.ch > Subject: [BioC] Installing Packages from Bioconductor: Error > > > Hi Everyone. > > I am a R and Bioconductor novice. On the R GUI when under packages I > click "install packages from bioconductor" I get this message: > > > > local({a<- CRAN.packages(CRAN=getOption("BIOC")) > + install.packages(select.list(a[,1],,TRUE), .libPaths()[1], > available=a, > CRAN=getOption("BIOC"), dependencies=TRUE)}) > trying URL > `http://www.bioconductor.org/bin/windows/contrib/2.0/PACKAGES' > Error in download.file(url = paste(contriburl, "PACKAGES", > sep = "/"), : > cannot open URL > `http://www.bioconductor.org/bin/windows/contrib/2.0/PACKAGES' > In addition: Warning message: > unable to connect to 'www.bioconductor.org' on port 80. > > > Any suggestions are appreciated? Thanks. Eric. > > Post-doc > Serono > Massachusetts > > ************************************************************** > ****************************** > S - This message contains confidential information and is > in...{{dropped}} > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor >
ADD COMMENTlink written 12.4 years ago by Arne.Muller@aventis.com620
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gravatar for James W. MacDonald
12.4 years ago by
United States
James W. MacDonald43k wrote:
Eric.Grund@serono.com wrote: > Hi Everyone. > > I am a R and Bioconductor novice. On the R GUI when under packages I > click "install packages from bioconductor" I get this message: > > > >>local({a<- CRAN.packages(CRAN=getOption("BIOC")) > > + install.packages(select.list(a[,1],,TRUE), .libPaths()[1], available=a, > CRAN=getOption("BIOC"), dependencies=TRUE)}) > trying URL `http://www.bioconductor.org/bin/windows/contrib/2.0/PACKAGES' > Error in download.file(url = paste(contriburl, "PACKAGES", sep = "/"), : > cannot open URL > `http://www.bioconductor.org/bin/windows/contrib/2.0/PACKAGES' > In addition: Warning message: > unable to connect to 'www.bioconductor.org' on port 80. > > > Any suggestions are appreciated? Thanks. Eric. Most questions like this can be answered quite easily by looking at either the Bioconductor website or by looking at the R FAQ. For instance, on the main BioC page, there is a link "Instructions on installing Bioconductor 1.5". If you follow that link, you will see the instructions as well as some further notes about people having troubles downloading the packages, along with a link to the R FAQ that covers this problem: http://cran.r-project.org/bin/windows/rw-FAQ.html#The-internet- download-functions-fail_002e One of the best things you can do as a novice is to check the FAQ and/or mailing lists first when you have problems. R has a steep learning curve, and the more you read, the less steep it will be. Best, Jim > > Post-doc > Serono > Massachusetts > > ******************************************************************** ************************ > S - This message contains confidential information and is in...{{dropped}} > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor -- James W. MacDonald Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109
ADD COMMENTlink written 12.4 years ago by James W. MacDonald43k
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gravatar for Ron Ophir
12.4 years ago by
Ron Ophir270
Ron Ophir270 wrote:
Hi Eric, Go to the R shortcut properties and add in the target window --internet2 after the double quotes. If your browser works that R download will work too. Ron >>> <eric.grund@serono.com> 11/30/04 3:47 PM >>> Hi Everyone. I am a R and Bioconductor novice. On the R GUI when under packages I click "install packages from bioconductor" I get this message: > local({a<- CRAN.packages(CRAN=getOption("BIOC")) + install.packages(select.list(a[,1],,TRUE), .libPaths()[1], available=a, CRAN=getOption("BIOC"), dependencies=TRUE)}) trying URL `http://www.bioconductor.org/bin/windows/contrib/2.0/PACKAGES' Error in download.file(url = paste(contriburl, "PACKAGES", sep = "/"), : cannot open URL `http://www.bioconductor.org/bin/windows/contrib/2.0/PACKAGES' In addition: Warning message: unable to connect to 'www.bioconductor.org' on port 80. Any suggestions are appreciated? Thanks. Eric. Post-doc Serono Massachusetts ********************************************************************** ********************** S - This message contains confidential information and is in...{{dropped}} _______________________________________________ Bioconductor mailing list Bioconductor@stat.math.ethz.ch https://stat.ethz.ch/mailman/listinfo/bioconductor
ADD COMMENTlink written 12.4 years ago by Ron Ophir270
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