Hi there all,
Does anyone have RPY working? I install via toolshed and the folder is empty,
and shows missing dependencies.
I have searched previous posts, nothing since 2010. I have a local install
(production config - postgres, etc - on CENTOS 6.5). I posted last week and it
fell off the list.
>From Galaxy User interface:
Dataset generation errors
Dataset 81: Build base quality distribution on data 9
Tool execution generated the following error message:
Traceback (most recent call last):
File
"/apps/galaxy/galaxy-dist/tools/metag_tools/short_reads_figure_score.py", line
12, in <module>
from rpy import *
ImportError: No module named rpy
I have attempted to download/install the scripts but they fail with multiple
errors (most posts out there have a bad URL) -
http://getgalaxyp.org/install.html says use: curl
http://rpy.svn.sourceforge.net/viewvc/rpy/trunk/rpy/?view=tar > rpy.tar.gz
if you view that it redirects you to another URL.
Via shell: R is installed: R version 2.13.0 (2011-04-13)
Can someone provide me some help please to get it working via Galaxy? I
understand it works in Central.
>From Toolshed:
Name
Version
Type
Installation status
rpy<http://seachildrenslinuxvm.cloudapp.net:8080/admin_toolshed/manage_repository_tool_dependencies?tool_dependency_ids=fb85969571388350>
1.0.3
package
Error
Toolshed Error:
In file included from src/rpymodule2110.c:51: src/RPy.h:56:20: error: Python.h:
No such file or directory In file included from
/usr/lib64/python2.6/site-packages/numpy/core/include/numpy/ndarrayobject.h:68,
from
/usr/lib64/python2.6/site-packages/numpy/core/include/numpy/arrayobject.h:14,
from src/RPy.h:89, from src/rpymodule2110.c:51:
/usr/lib64/python2.6/site-packages/numpy/core/include/numpy/npy_common.h:79:2:
error: #error Must use Python with unicode enabled. <truncated>
Thanks,
Curt
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