[R] Review my upgrade plan from 2.8.0 to 2.8.1

[Uwe Ligges]

Daren Tan wrote:
> Hi,
> 
> On my laptop, R is installed on windows XP SP2 at D:\Program
> Files\R\R-2.8.0, and all add-on packages are installed at D:\Program
> Files\R\R-2.8.0.libs. In addition, I have created two environment
> enviroment to ease upgrading and installation of packages. Packages
> installed is a mix of those from CRAN, Bioconductor and local zips.
> 
> D:\My Document\My Desktop>echo %R_HOME%
> D:/Program Files/R/R-2.8.0
> 
> D:\My Document\My Desktop>echo %R_LIBS%
> D:/Program Files/R/R-2.8.0.libs
> 
> My plans for upgrade. Please give your precious comments to make it as
> easy as possible, and error free.
> 1) Download R-2.8.1 and install at D:\Program Files\R\R-2.8.1.
> 2) Create a new folder D:/Program Files/R/R-2.8.1.libs, and copy all
> the packages from D:/Program Files/R/R-2.8.0.libs to the new one.
> 3) Update the two environment variables  %R_HOME% and %R_LIBS% to
> point to the new R-2.8.1 and library
> 4) Execute R
> 5) Update CRAN packages via
> update.packages()
> 6) Update Bioconductor packages via
> source("http://bioconductor.org/biocLite.R")
> update.packages(repos=biocinstallRepos(), ask=FALSE)
> 7) Update local zip packages via
> Go to menu -> Packages -> Install packages from local zip -> select
> the zip file.
> 8) Done!!!


That sounds fine.
If you upgrade to a new major release, you might want to run

update.packages(checkBuilt=TRUE)

instead.

Best,
Uwe Ligges





>> sessionInfo()
> R version 2.8.0 (2008-10-20)
> i386-pc-mingw32
> 
> locale:
> LC_COLLATE=English_United States.1252;LC_CTYPE=English_United
> States.1252;LC_MONETARY=English_United
> States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252
> 
> attached base packages:
> [1] grid      tools     stats     graphics  grDevices utils
> datasets  methods   base
> 
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