On Wed, Jun 22, 2011 at 12:47 AM, Ira Cooke
<I.Cooke@latrobe.edu.au> wrote:
Hi,
I recently downloaded galaxy and had some problems installing it on my machine (running Mac OSX 10.6.7 ). I've found a workaround to my problem, but I thought I should post here in case it is useful.
I obtained the standard galaxy distribution using
hg clone https://bitbucket.org/galaxy/galaxy-dist/
I then tried running sh run.sh but got;
Traceback (most recent call last):
File "/Users/iracooke/Sources/galaxy-dist/lib/galaxy/web/buildapp.py", line 81, in app_factory
from galaxy.app import UniverseApplication
File "/Users/iracooke/Sources/galaxy-dist/lib/galaxy/app.py", line 11, in <module>
from galaxy.tools.imp_exp import load_history_imp_exp_tools
File "/Users/iracooke/Sources/galaxy-dist/lib/galaxy/tools/imp_exp/__init__.py", line 6, in <module>
from galaxy.web.base.controller import UsesHistory
File "/Users/iracooke/Sources/galaxy-dist/lib/galaxy/web/base/controller.py", line 12, in <module>
from galaxy.visualization.tracks.data_providers import get_data_provider
File "/Users/iracooke/Sources/galaxy-dist/lib/galaxy/visualization/tracks/data_providers.py", line 16, in <module>
from bx.arrays.array_tree import FileArrayTreeDict
File "numpy.pxd", line 119, in init bx.arrays.array_tree (lib/bx/arrays/array_tree.c:11323)
ValueError: numpy.dtype does not appear to be the correct type object
I googled this error and found a post suggesting that I try virtualenv ... I tried that but it made no difference.
Python --version returns
2.6.1
After some digging I tried rescrambling the numpy and then the bx_python egg. After rescrambling the latter sh run.sh worked.
Anyway I'm not sure if other mac users have had similar problems. In my case I'm pretty sure I had installed things with easy_install in the past ...but I assume using virtualenv would have solved that problem.
Ira
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