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Review my upgrade plan from 2.8.0 to 2.8.1

3 messages · Daren Tan, Gabor Grothendieck, Uwe Ligges

Daren Tan
# 
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!!!
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
Gabor Grothendieck
# 
I am on Vista so some of this might be slightly different on XP
but I only keep one 2.8.x version, one 2.7.x version, etc.

For me, all 2.8.x versions of R go into:
%ProgramFiles%\R\R-2.8.x

so installing R-2.8.1 is just a matter of installing it over
R-2.8.0 and there is nothing more to do.

In general, I let R choose the location of the libraries.  It
creates two libraries (one for the packages that come
with R and one for the ones that I download):

%ProgramFiles%\R\R-2.8.x\library
%USERPROFILE%\Documents\R\win-library\2.8

I do keep separate R-2.6.x, R-2.7.x, R-2.8.x, etc. and for
the corresponding libraries in win-library I use
copydir.bat or movedir.bat from batchfiles.  See
http://batchfiles.googlecode.com

I also use Rgui.bat, also from batchfiles, to start R or else
click on the R icon on the Desktop.

I don't make any change to my PATH nor do I create nor
change any environment variables.  (Rgui.bat, copydir.bat,
movedir.bat, etc. can simply be placed anywhere on the
existing path.)
On Sat, Feb 28, 2009 at 6:23 AM, Daren Tan <darentan76 at gmail.com> wrote:
Uwe Ligges
#
Daren Tan wrote:
That sounds fine.
If you upgrade to a new major release, you might want to run

update.packages(checkBuilt=TRUE)

instead.

Best,
Uwe Ligges