Error when attempting to run galaxy - galaxy-dev

21 Jul 2010


      Hello,
I'm running a fresh install of Ubuntu 10.04 LTS, python version 2.6 and
numpy version 1.3.0 and I get this error when I try to run galaxy on my
machine. I downloaded and installed galaxy by following the steps on the
wiki and used the mercurial repository to download it.
galaxy.web.framework.base DEBUG 2010-07-20 12:36:28,494 Enabling 'async'
controller, class: ASync
Traceback (most recent call last):
  File "./scripts/paster.py", line 34, in <module>
    command.run()
  File
"/home/roger/galaxy-python/galaxy_dist/eggs/PasteScript-1.7.3-py2.6.egg/paste/script/command.py",
line 84, in run
    invoke(command, command_name, options, args[1:])
  File
"/home/roger/galaxy-python/galaxy_dist/eggs/PasteScript-1.7.3-py2.6.egg/paste/script/command.py",
line 123, in invoke
    exit_code = runner.run(args)
  File
"/home/roger/galaxy-python/galaxy_dist/eggs/PasteScript-1.7.3-py2.6.egg/paste/script/command.py",
line 218, in run
    result = self.command()
  File
"/home/roger/galaxy-python/galaxy_dist/eggs/PasteScript-1.7.3-py2.6.egg/paste/script/serve.py",
line 276, in command
    relative_to=base, global_conf=vars)
  File
"/home/roger/galaxy-python/galaxy_dist/eggs/PasteScript-1.7.3-py2.6.egg/paste/script/serve.py",
line 313, in loadapp
    **kw)
  File
"/home/roger/galaxy-python/galaxy_dist/eggs/PasteDeploy-1.3.3-py2.6.egg/paste/deploy/loadwsgi.py",
line 204, in loadapp
    return loadobj(APP, uri, name=name, **kw)
  File
"/home/roger/galaxy-python/galaxy_dist/eggs/PasteDeploy-1.3.3-py2.6.egg/paste/deploy/loadwsgi.py",
line 225, in loadobj
    return context.create()
  File
"/home/roger/galaxy-python/galaxy_dist/eggs/PasteDeploy-1.3.3-py2.6.egg/paste/deploy/loadwsgi.py",
line 625, in create
    return self.object_type.invoke(self)
  File
"/home/roger/galaxy-python/galaxy_dist/eggs/PasteDeploy-1.3.3-py2.6.egg/paste/deploy/loadwsgi.py",
line 110, in invoke
    return fix_call(context.object, context.global_conf,
**context.local_conf)
  File
"/home/roger/galaxy-python/galaxy_dist/eggs/PasteDeploy-1.3.3-py2.6.egg/paste/deploy/util/fixtypeerror.py",
line 57, in fix_call
    val = callable(*args, **kw)
  File "/home/roger/galaxy-python/galaxy_dist/lib/galaxy/web/buildapp.py",
line 90, in app_factory
    add_controllers( webapp, app )
  File "/home/roger/galaxy-python/galaxy_dist/lib/galaxy/web/buildapp.py",
line 39, in add_controllers
    module = __import__( module_name )
  File
"/home/roger/galaxy-python/galaxy_dist/lib/galaxy/web/controllers/tracks.py",
line 27, in <module>
    from galaxy.visualization.tracks.data.array_tree import
ArrayTreeDataProvider
  File
"/home/roger/galaxy-python/galaxy_dist/lib/galaxy/visualization/tracks/data/array_tree.py",
line 8, 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
Any advice?
Thank you
Roger