On Nov 25, 2011, at 6:52 AM, Ivan Merelli wrote:
Hi,
I'm trying to use rgenetics in galaxy, but I have some problem in installting rpy-1.0.3 with R-2.13.1.
I found this guide, which is about the same problem of mine: http://gmod.827538.n3.nabble.com/Rpy-1-0-3-and-R-2-13-1-td3359590.html
but didn't work for me (although the part about the modulefile is quite obscure for me). The problem seems to be correlated to an header file (Rdevices.h) which is no more present in the latest R distribution.
Any hints to solve this problem? May I use rpy2?
Best, Ivan
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There is information on solving this available via a web search - http://www.mail-archive.com/rpy-list@lists.sourceforge.net/msg01500.html for instance. In short,
Unpack rpy-1.0.3 and patch the following files: rpm_tools.py version = re.search(" +([0-9].[0-9]+.[0-9])", output) setup.py include_dirs = [ os.path.join(RHOME.strip(), 'include'), 'src', '/usr/share/R/include', '/apps/R/2.13.1/include' ]
* Build rpy with python setup.py install
Cheers,
Alex