5:51 p.m.
This is a fresh clone, from galaxy-dist, but I have a pile of patch
files to keep my local hacks straight. I forgot about the registry.py
file. Removed that, as well as the blast import. It's hard to keep
local hacks and regular updates in sync...
Thanks,
David
On 3/6/2013 12:16 PM, Dannon Baker wrote:
Is this a fresh clone from galaxy-dist or have you pulled it from
somewhere else? It looks like your galaxy clone's
lib/galaxy/datatypes/registry.py has been altered to have an extra
import, 'gmap', for gmap tools.
-Dannon
On Wed, Mar 6, 2013 at 12:08 PM, David Hoover <hooverdm(a)helix.nih.gov
<mailto:hooverdm@helix.nih.gov>> wrote:
Hi,
I'm trying to load an instance of Galaxy from scratch, and I'm
getting this error message after configuration and typing "./run.sh":
Traceback (most recent call last):
File "./scripts/paster.py", line 33, in <module>
serve.run()
File
"/spin1/users/galaxy/galaxy1/lib/galaxy/util/pastescript/serve.py", line
1056, in run
invoke(command, command_name, options, args[1:])
File
"/spin1/users/galaxy/galaxy1/lib/galaxy/util/pastescript/serve.py", line
1062, in invoke
exit_code = runner.run(args)
File
"/spin1/users/galaxy/galaxy1/lib/galaxy/util/pastescript/serve.py", line
227, in run
result = self.command()
File
"/spin1/users/galaxy/galaxy1/lib/galaxy/util/pastescript/serve.py", line
650, in command
app = loadapp( app_spec, name=app_name, relative_to=base,
global_conf=vars)
File
"/spin1/users/galaxy/galaxy1/lib/galaxy/util/pastescript/loadwsgi.py",
line 350, in loadapp
return loadobj(APP, uri, name=name, **kw)
File
"/spin1/users/galaxy/galaxy1/lib/galaxy/util/pastescript/loadwsgi.py",
line 374, in loadobj
global_conf=global_conf)
File
"/spin1/users/galaxy/galaxy1/lib/galaxy/util/pastescript/loadwsgi.py",
line 399, in loadcontext
global_conf=global_conf)
File
"/spin1/users/galaxy/galaxy1/lib/galaxy/util/pastescript/loadwsgi.py",
line 423, in _loadconfig
return loader.get_context(object_type, name, global_conf)
File
"/spin1/users/galaxy/galaxy1/lib/galaxy/util/pastescript/loadwsgi.py",
line 561, in get_context
section)
File
"/spin1/users/galaxy/galaxy1/lib/galaxy/util/pastescript/loadwsgi.py",
line 620, in _context_from_explicit
value = import_string(found_expr)
File
"/spin1/users/galaxy/galaxy1/lib/galaxy/util/pastescript/loadwsgi.py",
line 125, in import_string
return pkg_resources.EntryPoint.parse("x=" + s).load(False)
File "/spin1/users/galaxy/galaxy1/lib/pkg_resources.py", line
1954, in load
entry = __import__(self.module_name, globals(),globals(),
['__name__'])
File "/spin1/users/galaxy/galaxy1/lib/galaxy/web/buildapp.py",
line 3, in <module>
from galaxy.webapps.galaxy.buildapp import app_factory
File
"/spin1/users/galaxy/galaxy1/lib/galaxy/webapps/galaxy/buildapp.py",
line 18, in <module>
from galaxy import config, jobs, util, tools
File "/spin1/users/galaxy/galaxy1/lib/galaxy/jobs/__init__.py",
line 15, in <module>
from galaxy import util, model
File "/spin1/users/galaxy/galaxy1/lib/galaxy/model/__init__.py",
line 13, in <module>
import galaxy.datatypes.registry
File
"/spin1/users/galaxy/galaxy1/lib/galaxy/datatypes/registry.py",
line 9, in <module>
import gmap # added for gmap tools
ImportError: No module named gmap
What is missing?
David Hoover
Helix Systems Staff
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