[Genabel-commits] r665 - pkg/webpages

[noreply at r-forge.r-project.org]

Author: yurii
Date: 2011-02-28 18:23:34 +0100 (Mon, 28 Feb 2011)
New Revision: 665

Added:
   pkg/webpages/tutHowToInstallDevelVersion.html
Log:
first version of tutorial "How to install devel-version of GenABEL suite"

Added: pkg/webpages/tutHowToInstallDevelVersion.html
===================================================================
--- pkg/webpages/tutHowToInstallDevelVersion.html	                        (rev 0)
+++ pkg/webpages/tutHowToInstallDevelVersion.html	2011-02-28 17:23:34 UTC (rev 665)
@@ -0,0 +1,98 @@
+<h3>
+How to install devel-version of GenABEL suite
+</h3>
+<p></p>
+<i>
+by Yurii Aulchenko, William Astle and Lennart Karssen for the GenABEL-devel team
+</i>
+<p></p>
+
+Here are instructions on how to get devel-version of GenABEL packages
+working, assuming you use Linux or Mac OS.
+<p></p>
+
+To get GenABEL & Co. running in devel-setting, you need to do a number of
+things. Plan to spend about 30 minutes on that. You will need good
+Inet connection and you also will
+need to have Subversion (svn) installed. 
+<p></p>
+
+1) Check if Subversion is installed. For that, try 'svn help'. If you 
+do get help, everyting must be all right. If Subversion is not there, 
+here is the link, which may help: 
+<a href="http://subversion.apache.org/packages.html">
+http://subversion.apache.org/packages.html
+</a>
+<p></p>
+
+2) In order to be able to compile devel-dersion, you need to set 
+an environmental variable R_HOME to point the location, where 
+R is installed. We assume that you use Bash (most people do); if not, 
+try to figure out how you can set environmental variables for your particular environment (and let us know so we can add it here :) ). 
+<p></p>
+
+You can check where R is installed by running 'dirname $(which R)' 
+on Bash command prompt. Assuming R is installed at '/usr/bin', add the following lines to your ~/.bashrc file
+<p></p>
+
+R_HOME=/usr/bin
+<br>
+export R_HOME
+<p></p>
+
+or, you can try
+<p></p>
+
+R_HOME=$(dirname $(which R))
+<br>
+export R_HOME
+<p></p>
+
+
+log out and log in again, or start a new terminal/console window.
+<p></p>
+
+3) Install _stable_ GenABEL et al., 'roxygen', and 'RUnit' 
+from CRAN; for that on R command line type
+<p></p>
+
+install.packages("GenABEL",dependencies=c("Depends","Suggests"))
+<br>
+install.packages("roxygen")
+<br>
+install.packages("RUnit")
+<p></p>
+
+3) Change to a place, where you want the source code 
+to go. Get to the latest code by
+<p></p>
+
+svn export svn://svn.r-forge.r-project.org/svnroot/genabel/pkg
+<p></p>
+
+This should create directory called 'pkg' with all packages 
+in it.
+<p></p>
+
+4) Compile and install latest code by
+<p></p>
+
+cd pkg
+<br>
+R CMD INSTALL DatABEL
+<br>
+R CMD INSTALL GenABEL
+<br>
+... etc.
+<p></p>
+
+Note some packages (e.g. ProbABEL) are not R packages; to 
+compile these use specific Makefile's, e.g.
+<p></p>
+cd ProbABEL
+<br>
+make
+<p></p>
+
+FINITO! Enjoy :)
+<p></p>