search for: choosebiocmirror

...orm i386-pc-mingw32 arch i386 os mingw32 system i386, mingw32 status major 2 minor 11.1 year 2010 month 05 day 31 svn rev 52157 language R version.string R version 2.11.1 (2010-05-31) > source("http://bioconductor.org/biocLite.R") BioC_mirror = http://www.bioconductor.org Change using chooseBioCmirror(). > biocLite("ALL") Using R version 2.11.1, biocinstall version 2.6.7. Installing Bioconductor version 2.6 packages: [1] "ALL" Please wait... Warning in install.packages(pkgs = pkgs, repos = repos, ...) : argument 'lib' is missing: using '\Users\dbickel/R/win-l...

...am trying to install SJava but I haven't been able to complete it successfully. I have tried to install it from bioconductor using the followin code and got the following output: > source("http://www.bioconductor.org/biocLite.R") BioC_mirror = http://bioconductor.org Change using chooseBioCmirror(). > biocLite("SJava") Using R version 2.12.2, biocinstall version 2.7.7. Installing Bioconductor version 2.7 packages: [1] "SJava" Please wait... Installing package(s) into ‘C:\Users\Hp\Documents/R/win-library/2.12’ (as ‘lib’ is unspecified) Mensajes de aviso perdidos I...

Hello, I have the fellowing problem and I am thankful for any advice! Regards, Samuel ################################################################ >   source("http://bioconductor.org/biocLite.R") BioC_mirror = http://www.bioconductor.org Change using chooseBioCmirror(). >     biocLite("SSPA") Using R version 2.11.0, biocinstall version 2.6.7. Installing Bioconductor version 2.6 packages: [1] "SSPA" Please wait... trying URL 'http://www.bioconductor.org/packages/2.6/bioc/bin/windows/contrib/2.11/SSPA_1.4.0.zip' Content type 'a...

...4] LC_NUMERIC=C LC_TIME=English_United States.1252 attached base packages: [1] stats graphics grDevices utils datasets methods base > source("http://www.bioconductor.org/biocLite.R") BioC_mirror = http://www.bioconductor.org Change using chooseBioCmirror(). > biocLite("Biobase") Using R version 2.12.0, biocinstall version 2.7.4. Installing Bioconductor version 2.7 packages: [1] "Biobase" Please wait... Error: subscript out of bounds > traceback() 7: .readPkgDesc(lib, fields) 6: installed.packages(lib.loc = libpath, field...

...out any success. Any hints how I can tell the system where to search for libgvc ? Thank's in advance, Wolfgang Below the complete commands & error message and sessionInfo : > source("http://www.bioconductor.org/biocLite.R") BioC_mirror = http://bioconductor.org Change using chooseBioCmirror(). > biocLite("Rgraphviz") Using R version 2.13.0, biocinstall version 2.8.4. Installing Bioconductor version 2.8 packages: [1] "Rgraphviz" Please wait... trying URL 'http://bioconductor.org/packages/2.8/bioc/src/contrib/Rgraphviz_1.30.1.tar.gz' Content type 'app...

Dear all, I am trying to run the function "lambdaSets" using the package "RBGL". This package uses another package "graph" which has been removed from the CRAN repository, but is available at the archive (http://cran.r-project.org/src/contrib/Archive/graph/). I installed the package from the R menu at "install packages from local zip files" (after

Deal R Users, I'm trying to find out how can I compute probabilities on a Bayesian Network using R. The Bayesian Network I modelled is shown at http://www.dsr.inpe.br/~mello/1727/BNgrapmodel.png and I'd like to know how can I proceed (commands on R) to answer questions like: (1) what is the probability of S=T given C=T, L=T, R=F, H=F and D=F; or (2) what is the probability of S=T

Can somebody save-me? Thanks in advance! #R script: #trying to find out how solve a discrete Bayesian Belief Network. #option: using 'catnet' package #BEGIN library(catnet) cnet <- cnNew(nodes = c("a", "b", "c"), cats = list(c("1", "2"), c("1", "2"), c("1", "2")), parents = list(NULL, c(1), c(1,

...ll of R on mac os x 10.6.4 (snow leopard) RSQLite did not install while running biocLite() $ R R version 2.11.1 (2010-05-31) Copyright (C) 2010 The R Foundation for Statistical Computing ISBN 3-900051-07-0 [...] Loading required package: utils BioC_mirror = http://www.bioconductor.org Change using chooseBioCmirror(). [Previously saved workspace restored] > biocLite("RSQLite") Using R version 2.11.1, biocinstall version 2.6.7. Installing Bioconductor version 2.6 packages: [1] "RSQLite" Please wait... Warning in install.packages(pkgs = pkgs, repos = repos, ...) : argument 'lib...

...e5dd943b8547f0b7719664e815b MD5 (RESOURCES) = c7cb32499ebbf85deb064aab282f93a4 MD5 (THANKS) = d4b45e302b7cad0fc4bb50d2cfe69649 MD5 (R-3/R-3.0.1.tar.gz) = 36d51544b007fff26c7fbf36b02ea5ad This is the relevant part of the NEWS file CHANGES IN R 3.0.1: NEW FEATURES: o chooseCRANmirror() and chooseBioCmirror() gain an ind argument (like setRepositories()). o mcparallel has a new argument mc.interactive which can modify the interactive flag in the child process. The new default is FALSE which makes child processes non-interactive by default (this prevents lock-ups due to chi...

I've asked a question in the BioConductor list about package management. My solution depends on your answer to the following question. Are installed R packages "relocatable"? I mean relocatable in the same sense that files in a RedHat RPM file might be "relocatable" after compiling (http://www.rpm.org/max-rpm/ch-rpm-reloc.html). This allows one to build a package as the

...ac > users to choose the text interface. This changes the > behaviour of new.packages(ask=TRUE) to be like > update.packages(ask=TRUE) on those platforms in using a text > menu: use ask="graphics" for a graphical menu. > > o New function chooseBioCmirror() to set the "BioC_mirror" option. > > o The R grammar prevents using the argument 'name' in signatures > of S4 methods for '$' and '$<-', since they will always be > called with a character string value for 'name'. The im...

...ument to allow Windows/Mac users to choose the text interface. This changes the behaviour of new.packages(ask=TRUE) to be like update.packages(ask=TRUE) on those platforms in using a text menu: use ask="graphics" for a graphical menu. o New function chooseBioCmirror() to set the "BioC_mirror" option. o The R grammar prevents using the argument 'name' in signatures of S4 methods for '$' and '$<-', since they will always be called with a character string value for 'name'. The implicit S...

...ument to allow Windows/Mac users to choose the text interface. This changes the behaviour of new.packages(ask=TRUE) to be like update.packages(ask=TRUE) on those platforms in using a text menu: use ask="graphics" for a graphical menu. o New function chooseBioCmirror() to set the "BioC_mirror" option. o The R grammar prevents using the argument 'name' in signatures of S4 methods for '$' and '$<-', since they will always be called with a character string value for 'name'. The implicit S...

...e effect of making factor() succeed on empty or length-one non-atomic vector(-like) types (e.g., "list"), where it failed before. * diag() gets an optional names argument: this may require updates to packages defining S4 methods for it. * chooseCRANmirror() and chooseBioCmirror() no longer have a useHTTPS argument, not needed now all R builds support https:// downloads. * New summary() method for warnings() with a (somewhat experimental) print() method. * (methods package.) .self is now automatically registered as a global variable when r...

...e effect of making factor() succeed on empty or length-one non-atomic vector(-like) types (e.g., "list"), where it failed before. * diag() gets an optional names argument: this may require updates to packages defining S4 methods for it. * chooseCRANmirror() and chooseBioCmirror() no longer have a useHTTPS argument, not needed now all R builds support https:// downloads. * New summary() method for warnings() with a (somewhat experimental) print() method. * (methods package.) .self is now automatically registered as a global variable when r...