1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/changeset/c7ca68b62282/ changeset: c7ca68b62282 user: greg date: 2012-02-28 21:52:03 summary: Fix for installing a tool shed repository that includes tools. affected #: 1 file
diff -r 56e403f0bb140c27ee7c8df444da375e167d0f6e -r c7ca68b622823d146fac4db1cb0d5963e1daa1a9 lib/galaxy/util/shed_util.py --- a/lib/galaxy/util/shed_util.py +++ b/lib/galaxy/util/shed_util.py @@ -19,7 +19,12 @@ tool_path = shed_tool_conf_dict[ 'tool_path' ] config_elems = shed_tool_conf_dict[ 'config_elems' ] # Generate the list of ElementTree Element objects for each section or list of tools. - elem_list = generate_tool_panel_elem_list( repository_name, repository_clone_url, changeset_revision, tool_panel_dict, repository_tools_tups, owner=owner ) + elem_list = generate_tool_panel_elem_list( repository_name, + repository_clone_url, + changeset_revision, + tool_panel_dict, + repository_tools_tups, + owner=owner ) # Load the tools into the tool panel outside of any sections. for config_elem in elem_list: if config_elem.tag == 'section': @@ -785,6 +790,7 @@ # or outside of any sections in the tool panel. We cannot pass a specific tool_config since we do not yet have one. tool_section_dict = generate_tool_section_dict( tool_config=None, tool_section=tool_section ) metadata_dict = generate_metadata( trans.app.toolbox, relative_install_dir, repository_clone_url, tool_section_dict=tool_section_dict ) + tool_panel_dict = metadata_dict[ 'tool_panel_section' ] # Add a new record to the tool_shed_repository table if one doesn't already exist. If one exists but is marked deleted, undelete it. This # must happen before the call to add_to_tool_panel() below because tools will not be properly loaded if the repository is marked deleted. log.debug( "Adding new row (or updating an existing row) for repository '%s' in the tool_shed_repository table." % repository_name )
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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