Hi John
The problem is the same with galaxy 16.01.
ls lib/galaxy/tools/toolbox/filters/examples.py*
lib/galaxy/tools/toolbox/filters/examples.py lib/galaxy/tools/toolbox/filters/examples.py.sample
but when I click on "Manage your ToolBox filters" (/user/toolbox_filters?cntrller=user) in my User preferences panel, I'm still facing this error :
URL: http://galaxy.biogemma.fr/user/toolbox_filters?cntrller=user sys.path: [ '/softs/bioinfo/galaxy-prod/scripts', '/softs/bioinfo/galaxy-prod/lib', '/softs/bioinfo/galaxy-prod/.venv/lib/python27.zip', '/softs/bioinfo/galaxy-prod/.venv/lib/python2.7', '/softs/bioinfo/galaxy-prod/.venv/lib/python2.7/plat-linux2', '/softs/bioinfo/galaxy-prod/.venv/lib/python2.7/lib-tk', '/softs/bioinfo/galaxy-prod/.venv/lib/python2.7/lib-old', '/softs/bioinfo/galaxy-prod/.venv/lib/python2.7/lib-dynload', '/softs/add-ons/anaconda-2.3.0/lib/python2.7', '/softs/add-ons/anaconda-2.3.0/lib/python2.7/plat-linux2', '/softs/add-ons/anaconda-2.3.0/lib/python2.7/lib-tk', '/softs/bioinfo/galaxy-prod/.venv/lib/python2.7/site-packages'] Module galaxy.web.framework.middleware.error:151 in __call__
app_iter = self.application(environ, sr_checker)
Module paste.recursive:85 in __call__
return self.application(environ, start_response)
Module galaxy.web.framework.middleware.remoteuser:163 in __call__
return self.app( environ, start_response )
Module paste.httpexceptions:640 in __call__
return self.application(environ, start_response)
Module galaxy.web.framework.base:131 in __call__
return self.handle_request( environ, start_response )
Module galaxy.web.framework.base:189 in handle_request
body = method( trans, **kwargs )
Module galaxy.web.framework.decorators:65 in decorator
return func( self, trans, *args, **kwargs )
Module galaxy.webapps.galaxy.controllers.user:1331 in toolbox_filters
tool_filters = get_filter_mapping( saved_user_tool_filters, trans.app.config.user_tool_filters )
Module galaxy.webapps.galaxy.controllers.user:1284 in get_filter_mapping
module = __import__( module_name, globals(), fromlist=['temp_module'] )
ImportError: No module named examples
The paster.log shows : Error - <type 'exceptions.ImportError'>: No module named examples
Do you have any idea ?
Thank you.
Fred
-----Message d'origine----- De : SAPET, Frederic Envoyé : jeudi 3 mars 2016 09:10 À : 'John Chilton' jmchilton@gmail.com Cc : galaxy-dev@lists.galaxyproject.org Objet : RE: [galaxy-dev] Tool Visibility feature
Hi John
Yes, I have do that :
ls lib/galaxy/tools/toolbox/filters/examples.py*
lib/galaxy/tools/toolbox/filters/examples.py lib/galaxy/tools/toolbox/filters/examples.py.sample
I'm currently trying to set up another galaxy server, I will try Galaxy 16.01 with this functionality.
Thank you for the wiki.
Fred
-----Message d'origine----- De : John Chilton [mailto:jmchilton@gmail.com] Envoyé : mercredi 2 mars 2016 21:20 À : SAPET, Frederic frederic.sapet@biogemma.com Cc : galaxy-dev@lists.galaxyproject.org Objet : Re: [galaxy-dev] Tool Visibility feature
I have fixed the path to the filter directory on the wiki, have you copied lib/galaxy/tools/toolbox/filters/examples.py.sample to lib/galaxy/tools/toolbox/filters/examples.py?
-John
On Fri, Feb 19, 2016 at 4:22 PM, SAPET, Frederic frederic.sapet@biogemma.com wrote:
Hello
I'm trying to set up this feature : https://wiki.galaxyproject.org/Admin/Config/Access%20Control
it seems that some files have been moved from : lib/galaxy/tools/filters/ to lib/galaxy/tools/toolbox/filters/
by the way, when I uncomment " user_tool_filters = examples:restrict_upload_to_admins, examples:restrict_encode" in my galaxy.ini file, it does not work.
When I click on "Manage your ToolBox filters" (/user/toolbox_filters?cntrller=user) in my User preferences panel, I'm facing this error :
Internal Server Error Galaxy was unable to successfully complete your request
URL: http://galaxy.biogemma.fr/user/toolbox_filters?cntrller=user sys.path: [ '/softs/bioinfo/galaxy-prod/eggs/Parsley-1.1-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/Fabric-1.7.0-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/ssh-1.7.14-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/paramiko-1.11.1-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/SVGFig-1.1.6-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/drmaa-0.7.6-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/Whoosh-2.4.1-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/Beaker-1.4-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/MySQL_python-1.2.3c1_5.1.41_static-py2.6-linux-x86_64-ucs4.egg', '/softs/bioinfo/galaxy-prod/eggs/sqlalchemy_migrate-0.9.6-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/Tempita-0.5.1-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/decorator-3.1.2-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/sqlparse-0.1.14-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/six-1.9.0-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/Babel-1.3-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/pytz-2013.9-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/mercurial-3.2.4-py2.6-linux-x86_64-ucs4.egg', '/softs/bioinfo/galaxy-prod/eggs/Mako-0.4.1-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/kombu-3.0.24-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/ordereddict-1.1-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/importlib-1.0.3-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/anyjson-0.3.3-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/PyYAML-3.10-py2.6-linux-x86_64-ucs4.egg', '/softs/bioinfo/galaxy-prod/eggs/WebHelpers-1.3-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/MarkupSafe-0.12-py2.6-linux-x86_64-ucs4.egg', '/softs/bioinfo/galaxy-prod/eggs/pycrypto-2.5-py2.6-linux-x86_64-ucs4.egg', '/softs/bioinfo/galaxy-prod/eggs/Cheetah-2.2.2-py2.6-linux-x86_64-ucs4.egg', '/softs/bioinfo/galaxy-prod/eggs/python_lzo-1.08_2.03_static-py2.6-linux-x86_64-ucs4.egg', '/softs/bioinfo/galaxy-prod/eggs/numpy-1.6.0-py2.6-linux-x86_64-ucs4.egg', '/softs/bioinfo/galaxy-prod/eggs/pysam-0.4.2_kanwei_b10f6e722e9a-py2.6-linux-x86_64-ucs4.egg', '/softs/bioinfo/galaxy-prod/eggs/bx_python-0.7.2-py2.6-linux-x86_64-ucs4.egg', '/softs/bioinfo/galaxy-prod/eggs/SQLAlchemy-1.0.8-py2.6-linux-x86_64-ucs4.egg', '/softs/bioinfo/galaxy-prod/eggs/WebOb-0.8.5-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/Routes-2.1-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/repoze.lru-0.6-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/amqp-1.4.6-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/wchartype-0.1-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/docutils-0.7-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/PasteDeploy-1.5.0-py2.6.egg', '/softs/bioinfo/galaxy-prod/eggs/Paste-1.7.5.1-py2.6.egg', '/softs/bioinfo/galaxy-prod/lib', '/usr/lib/python2.6/site-packages/pip-7.1.2-py2.6.egg', '/usr/lib/python2.6/site-packages/setuptools-0.6c11-py2.6.egg', '/usr/lib/python2.6/site-packages/bz2file-0.98-py2.6.egg', '/usr/lib64/python26.zip', '/usr/lib64/python2.6', '/usr/lib64/python2.6/plat-linux2', '/usr/lib64/python2.6/lib-tk', '/usr/lib64/python2.6/lib-old', '/usr/lib64/python2.6/lib-dynload', '/usr/lib64/python2.6/site-packages/gtk-2.0', '/usr/lib64/python2.6/site-packages', '/usr/lib/python2.6/site-packages'] Module galaxy.web.framework.middleware.error:151 in __call__
app_iter = self.application(environ, sr_checker)
Module paste.recursive:84 in __call__
return self.application(environ, start_response)
Module galaxy.web.framework.middleware.remoteuser:143 in __call__
return self.app( environ, start_response )
Module paste.httpexceptions:633 in __call__
return self.application(environ, start_response)
Module galaxy.web.framework.base:133 in __call__
return self.handle_request( environ, start_response )
Module galaxy.web.framework.base:191 in handle_request
body = method( trans, **kwargs )
Module galaxy.web.framework.decorators:68 in decorator
return func( self, trans, *args, **kwargs )
Module galaxy.webapps.galaxy.controllers.user:1331 in toolbox_filters
tool_filters = get_filter_mapping( saved_user_tool_filters, trans.app.config.user_tool_filters )
Module galaxy.webapps.galaxy.controllers.user:1284 in get_filter_mapping
module = __import__( module_name, globals(), fromlist=['temp_module'] )
ImportError: No module named examples
Could you please provide me some help ? I have launched a git pull origin master before testing...
Thank you.
Fred
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