Michael Steder wrote:
> Any other ideas?  I can run galaxy-central but I'd like to work with the 
> stable galaxy if possible.

I can rebuild the bx_python egg, but it's odd this is happening - the
old numpy eggs haven't changed in over a year.  Could you remove
~/.python-eggs, and the bx_python and numpy eggs from Galaxy's eggs/
subdirectory, and then try again?

Thanks,
--nate

> 
> Because earlier revs of galaxy-dist startup fine for me I went through the 
> exercise of using hg bisect to mark my last pull rev of 5355 as good and 5585 
> as bad I went through some revs, each time attempting to start the server.  
> The bad revs failed to startup with ValueError 'numpy.dtype' exception where 
> the good revs started fine.
> 
> So according to hg bisect:
> 
> The first bad revision is:
> changeset:   5410:0194ab30a730
> user:        Nate Coraor <n...@bx.psu.edu>
> date:        Mon Apr 18 16:42:12 2011 -0400
> summary:     Update bx-python to the tip.
> 
> I'm not sure from the diff what change in that revision could cause this 
> error.  
> 
> What am I missing?  Is anyone else having trouble running the latest 
> galaxy-dist?
> 
> ~Mike
> 
> On Jun 15, 2011, at 12:18 PM, Nate Coraor wrote:
> 
> > Michael Steder wrote:
> >> I'm just following the documentation here: 
> >> https://bitbucket.org/galaxy/galaxy-central/wiki/GetGalaxy
> >> 
> >> And I ran into the following error:
> >> 
> >> $ hg clone https://bitbucket.org/galaxy/galaxy-dist
> >> $ cd galaxy-dist
> >> $ sh run.sh
> >> Fetch successful.
> >> Traceback (most recent call last):
> >>  File "/Users/steder/GO/GoGalaxy/galaxy-dist/lib/galaxy/web/buildapp.py", 
> >> line 81, in app_factory
> >>    from galaxy.app import UniverseApplication
> >>  File "/Users/steder/GO/GoGalaxy/galaxy-dist/lib/galaxy/app.py", line 11, 
> >> in <module>
> >>    from galaxy.tools.imp_exp import load_history_imp_exp_tools
> >>  File 
> >> "/Users/steder/GO/GoGalaxy/galaxy-dist/lib/galaxy/tools/imp_exp/__init__.py",
> >>  line 6, in <module>
> >>    from galaxy.web.base.controller import UsesHistory
> >>  File 
> >> "/Users/steder/GO/GoGalaxy/galaxy-dist/lib/galaxy/web/base/controller.py", 
> >> line 12, in <module>
> >>    from galaxy.visualization.tracks.data_providers import get_data_provider
> >>  File 
> >> "/Users/steder/GO/GoGalaxy/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 was able to run the previous stable version of Galaxy.  Is there 
> >> something I can do to get galaxy-dist running?
> > 
> > Hi Mike,
> > 
> > I'm moving this over to galaxy-dev since it deals with a local
> > installation.
> > 
> > It should be working, this would have been a problem for a short time
> > using galaxy-central, but should not have affected -dist.  Could you
> > send the output of:
> > 
> >  python ./scripts/get_platforms.py
> >  python -V
> > 
> >> 
> >> Should I be running galaxy-central instead?
> > 
> > No, galaxy-dist is fine (and should be less prone to issues due to
> > cloning/updating at the wrong moment).
> > 
> > Thanks,
> > --nate
> > 
> >> 
> >> ~Mike
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