similar to: pb with install

How do you update R on Windows and how do you install your own package with windows interface ? regards, Ghislaine GUIGON Biostatisticienne Plate-forme 2 Puces a ADN INSTITUT PASTEUR 25-28 rue du Dr ROUX 75724 Paris cedex 15 FRANCE tel: (33) (0)1 40 61 86 51 fax: (33) (0)1 45 68 84 06

I'm trying to install packages on windows XP and I have trouble with command Rcmd build (R version 1.8.1) : In the Windows console for package maanova for example, answer is : C:\Documents and Settings\dillies\Mes documents\ghis\packages>Rcmd build maanova * checking for file 'maanova/DESCRIPTION' ... OK * preparing 'maanova': * cleaning src *

Hello, I am trying to install affy package in R as follow: >R CMD INSTALL -l lib ~/rstuffs/affy_1.4.32.tar.gz Then I get an error at the end: Warning message: There is no package called 'Biobase' in: library(package, character.only = TRUE, logical = TRUE, warn.conflicts = warn.conflicts, [1] "ProgressBarText" [1]

Full_Name: H Deshmukh Version: 2.0 OS: 2000 Submission from: (NULL) (129.174.206.239) Can somebody tell me what is it that i am doing wrong,i was not sure whether to post BioConductor error here or not. Thanks >source("http://www.bioconductor.org/getBioC.R") > getBioC(libName = "all") Running getBioC version 1.2.65.... If you encounter problems, first make sure that

Hello, I am trying to install R/Bioconductor on a G4 Mac running OS X. I have successfully installed R so that a command window opens, but installation of the downloaded Bioconductor package is giving me trouble. After copying/pasting the Bioconductor installation script in to the window and typing getBioC(), I get the following error message. "Error in getBioC(): R not currently

Why am I seeing the following in R-devel (sept 2, 2006 build) on opensuse 10.1? I'm sure it is something simple I am missing, but I just don't see it (output below). Thanks, Sean > readLines(url("http://www.bioconductor.org/biocLite.R")) [1] "source(\"http://bioconductor.org/getBioC.R\")" [2] ""

OK, I really am struggling with this one! Forgive me if I am being stupid.... I am running R 1.7.1 on Suse Linux 8.1. I connect to the internet through a proxy so I have: IAHC-LINUX03:~ # echo $http_proxy wwwcache.bbsrc.ac.uk:8080 IAHC-LINUX03:~ # echo $HTTP_PROXY wwwcache.bbsrc.ac.uk:8080 just in case ;-) SO, i go into R and I get: >

Hi Thanks once again for your help, I do appreciate it..... however.... Here is what I get with your test.... (under tcsh - i normally use bash, but I will keep everything the same) users/mwatson> env http_proxy=http://wwwcache.bbsrc.ac.uk:8080/ R >options(internet.info=0) >update.packages() trying URL `http://cran.r-project.org/src/contrib/PACKAGES' unable to connect to

Hi, I am new to using R and Bioconductor. My first attempt at installing R seemed successful. Then while attempting to getBioC() I had to force quit the R application since I had to attend to something else urgently. When i returned and tried to getBioC, I am getting errors indicating that there is a lock on some files. So i would like to uninstall/remove all R components and Bioconductor

I am receiving the following errors when trying to install gcrma and a number of other Bioconductor packages when the installWithVers flag is set to be TRUE. >source("http://www.bioconductor.org/getBioC.R"); >getBioC("gcrma", installWithVers=T); Running biocinstall version 2.0.7 with R version 2.5.0 Your version of R requires version 2.0 of Bioconductor. Loading

I was trying to install R on a unix server. Because of a firewall i can't install biocLite for working with Bioconductor. With windows it wasn't a problem. I used the option '--internet2' to bypass the firewall. I don't have any idea, how to do it with unix. I tried to set my proxy >Sys.putenv("http_proxy"="http...:8080")

Hi, I am trying to install the BioC package from bioconductor onto a Windows Server 2003 machine. I can connect to bioconductor and when I run the getBioC("affy","release") function it starts to download but then it stops with the following error: Error: unable to create temporary directory 'C:\Program Files\R\R-2.2.1\release\file1eb26e9' The download just ends

Dear list, I have a lot of troubles installing Rgraphviz. I installed graphviz 2.13 from "graphviz-2.13.20061222.0540.tar" I installed the library Rgraphviz > getBioC("Rgraphviz") Running biocinstall version 2.0.8 with R version 2.5.0 Your version of R requires version 2.0 of Bioconductor. trying URL '

>I just installed bioconductor via getBioC.R but there >is 3 problems: apparently some libraries are missing >and I don't know which one, and even the XML package >add a error message like : >1:Installation of package Rgraphviz had non-zero exit >status in: installPkg(fileName, pkg, pkgVer, type, >lib, repEntry, versForce) >2:Installation of package rhdf5 had non-zero

Hello useRs, I'm trying to install bioconductor on ubuntu edgy eft and R 2.4.0. I have some error messages during installation, in particular for the package "affy" : "Error: package 'affy' required by 'makecdfenv' could not be found" I have tryed to install 'makecdfenv' with the command : getBioC("makecdfenv") But I have this message

Hi , there: I used function source to download the package but found > source("http://www.bioconductor.org/getBioC.R") Error in file(file, "r") : unable to open connection In addition: Warning message: unable to resolve 'www.bioconductor.org'. Then I downloaded the packages from CRAN and found > local({a <- CRAN.packages() +

Hi Seth, The possibility of caching computations would be a great boon when one is iteratively refining a paper; so I'm most grateful for your work on this. Unfortunately I have a problem to report: ******************installing****************** > source("http://bioconductor.org/biocLite.R") > biocLite("weaver") Running getBioC version 0.1.8 with R version

Hi all, I have this microarray large microarray data set (ALL) from which I would like to subset or extract a set of data based on a factor ($mol.biol). I looked up some example of subsetting in, picked up two commands and tried both but I got error messages as follows > testset <- subset(ALL, ALL$mol.biol %in% c("BCR/ABL","ALL1/AF4")) >> Error in

I am running R 2.0.0, GOstats 1.1.1 and GO 1.7.0, and when I use the function GOHyperG, I have the following error: w1<-as.list(hgu95av2LOCUSID) w2<-unique(unlist(w1)) set.seed(123) myLL<-sample(w2,100) xx <- GOHyperG(myLL) Error in mget(x, env = GOTERM, ifnotfound = NA) : recursive default argument reference In fact first I tried this function with my locusId ' list (with

In some code that I have written, use of url() is generating the output line: "cannot open: HTTP status was `404 Not Found`" The problem is that I do not want R to be outputting any error messages - I have 'internet.info' set to 3, show.error.messages set to FALSE and the url() wrapped in a try(). When the URL is not found I am already handling it in a manner consistent with