Good to know that I'm not the only one.
Also, I didn't put the rescramble commands in my original email ( In case there
are other mac users googling this thread).
rm -r ../eggs/numpy-1.3.0-py2.6-macosx-10.6-universal-ucs2.egg
rm -r ../eggs/bx_python-0.7.0_494c2d1d68b3-py2.6-macosx-10.6-universal-ucs2.egg
python scramble.py numpy
python scramble.py bx_python
Of course, you also need developer tools installed.
On 23/06/2011, at 2:16 AM, Michael Steder wrote:
> Hi Ira,
> I had the same problem and scrambling the eggs myself seemed to be the
> I'm not sure why we're having problems. It does seem to be specific to mac
> though, as I can run this same checkout on linux without any workarounds.
> On Jun 21, 2011, at 11:47 PM, Ira Cooke wrote:
>> 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
>> from galaxy.tools.imp_exp import load_history_imp_exp_tools
>> line 6, in <module>
>> from galaxy.web.base.controller import UsesHistory
>> line 12, in <module>
>> from galaxy.visualization.tracks.data_providers import get_data_provider
>> line 16, in <module>
>> from bx.arrays.array_tree import FileArrayTreeDict
>> File "numpy.pxd", line 119, in init bx.arrays.array_tree
>> 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
>> 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.
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