Hello,
Galaxy runs fine 'out of the box' with the default universe_wsgi.ini
initialization file. But when I change the database_connection
statement to connect to my MySql database, I get the errors below. Can
you please tell what the problem is? Thanks!
-Wolf.
Modification to universe_wsgi.ini file:
#database_connection =
sqlite:///./database/universe.sqlite?isolation_level=IMMEDIATE
database_connection =
mysql:///galaxy?unix_socket=/var/run/mysqld/mysqld.sock
-
Then when I type sh run.sh I get this:
-
wolf@linuxmint ~/Downloads/galaxy-galaxy-dist-ec29ce8e27a1 $ sh run.sh
Traceback (most recent call last):
File ./scripts/paster.py, line 34, in module
command.run()
File
/home/wolf/Downloads/galaxy-galaxy-dist-ec29ce8e27a1/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/wolf/Downloads/galaxy-galaxy-dist-ec29ce8e27a1/eggs/PasteScript-1.7.3-py2.6.egg/paste/script/command.py,
line 123, in invoke
exit_code = runner.run(args)
File
/home/wolf/Downloads/galaxy-galaxy-dist-ec29ce8e27a1/eggs/PasteScript-1.7.3-py2.6.egg/paste/script/command.py,
line 218, in run
result = self.command()
File
/home/wolf/Downloads/galaxy-galaxy-dist-ec29ce8e27a1/eggs/PasteScript-1.7.3-py2.6.egg/paste/script/serve.py,
line 276, in command
relative_to=base, global_conf=vars)
File
/home/wolf/Downloads/galaxy-galaxy-dist-ec29ce8e27a1/eggs/PasteScript-1.7.3-py2.6.egg/paste/script/serve.py,
line 313, in loadapp
**kw)
File
/home/wolf/Downloads/galaxy-galaxy-dist-ec29ce8e27a1/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/wolf/Downloads/galaxy-galaxy-dist-ec29ce8e27a1/eggs/PasteDeploy-1.3.3-py2.6.egg/paste/deploy/loadwsgi.py,
line 224, in loadobj
global_conf=global_conf)
File
/home/wolf/Downloads/galaxy-galaxy-dist-ec29ce8e27a1/eggs/PasteDeploy-1.3.3-py2.6.egg/paste/deploy/loadwsgi.py,
line 248, in loadcontext
global_conf=global_conf)
File
/home/wolf/Downloads/galaxy-galaxy-dist-ec29ce8e27a1/eggs/PasteDeploy-1.3.3-py2.6.egg/paste/deploy/loadwsgi.py,
line 278, in _loadconfig
return loader.get_context(object_type, name, global_conf)
File
/home/wolf/Downloads/galaxy-galaxy-dist-ec29ce8e27a1/eggs/PasteDeploy-1.3.3-py2.6.egg/paste/deploy/loadwsgi.py,
line 413, in get_context
section)
File
/home/wolf/Downloads/galaxy-galaxy-dist-ec29ce8e27a1/eggs/PasteDeploy-1.3.3-py2.6.egg/paste/deploy/loadwsgi.py,
line 458, in _context_from_explicit
value = import_string(found_expr)
File
/home/wolf/Downloads/galaxy-galaxy-dist-ec29ce8e27a1/eggs/PasteDeploy-1.3.3-py2.6.egg/paste/deploy/loadwsgi.py,
line 18, in import_string
return pkg_resources.EntryPoint.parse(x=+s).load(False)
File
/home/wolf/Downloads/galaxy-galaxy-dist-ec29ce8e27a1/lib/pkg_resources.py,
line 1997, in parse
src
ValueError: (EntryPoint must be in 'name=module:attrs [extras]'
format, 'x=galaxy.web.buildapp:app_factory\ndatabase_connection =
mysql:///galaxy?unix_socket=/var/run/mysqld/mysqld.sock')
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