from tool_shed.base.twilltestcase import ShedTwillTestCase, common, os class BasicToolShedFeatures( ShedTwillTestCase ): '''Test installing a basic repository.''' def test_0000_initiate_users( self ): """Create necessary user accounts.""" self.logout() self.login( email=common.test_user_1_email, username=common.test_user_1_name ) test_user_1 = self.test_db_util.get_user( common.test_user_1_email ) assert test_user_1 is not None, 'Problem retrieving user with email %s from the database' % test_user_1_email test_user_1_private_role = self.test_db_util.get_private_role( test_user_1 ) self.logout() self.login( email=common.admin_email, username=common.admin_username ) admin_user = self.test_db_util.get_user( common.admin_email ) assert admin_user is not None, 'Problem retrieving user with email %s from the database' % common.admin_email admin_user_private_role = self.test_db_util.get_private_role( admin_user ) self.galaxy_logout() self.galaxy_login( email=common.admin_email, username=common.admin_username ) galaxy_admin_user = self.test_db_util.get_galaxy_user( common.admin_email ) assert galaxy_admin_user is not None, 'Problem retrieving user with email %s from the database' % common.admin_email galaxy_admin_user_private_role = self.test_db_util.get_galaxy_private_role( galaxy_admin_user ) def test_0005_ensure_repositories_and_categories_exist( self ): '''Create the 0000 category and upload the filtering repository to it, if necessary.''' category = self.create_category( name='Test 0000 Basic Repository Features 1', description='Test 0000 Basic Repository Features 1' ) self.create_category( name='Test 0000 Basic Repository Features 2', description='Test 0000 Basic Repository Features 2' ) self.logout() self.login( email=common.test_user_1_email, username=common.test_user_1_name ) repository = self.get_or_create_repository( name='filtering_0000', description="Galaxy's filtering tool", long_description="Long description of Galaxy's filtering tool", owner=common.test_user_1_name, category_id=self.security.encode_id( category.id ) ) if self.repository_is_new( repository ): self.upload_file( repository, filename='filtering/filtering_1.1.0.tar', filepath=None, valid_tools_only=True, uncompress_file=True, remove_repo_files_not_in_tar=False, commit_message='Uploaded filtering 1.1.0 tarball.', strings_displayed=[], strings_not_displayed=[] ) self.upload_file( repository, filename='filtering/filtering_0000.txt', filepath=None, valid_tools_only=True, uncompress_file=False, remove_repo_files_not_in_tar=False, commit_message='Uploaded readme for 1.1.0', strings_displayed=[], strings_not_displayed=[] ) self.upload_file( repository, filename='filtering/filtering_2.2.0.tar', filepath=None, valid_tools_only=True, uncompress_file=True, remove_repo_files_not_in_tar=False, commit_message='Uploaded filtering 2.2.0 tarball.', strings_displayed=[], strings_not_displayed=[] ) self.upload_file( repository, filename='readme.txt', filepath=None, valid_tools_only=True, uncompress_file=False, remove_repo_files_not_in_tar=False, commit_message='Uploaded readme for 2.2.0', strings_displayed=[], strings_not_displayed=[] ) def test_0010_browse_tool_sheds( self ): """Browse the available tool sheds in this Galaxy instance.""" self.galaxy_logout() self.galaxy_login( email=common.admin_email, username=common.admin_username ) self.visit_galaxy_url( '/admin_toolshed/browse_tool_sheds' ) self.check_page_for_string( 'Embedded tool shed for functional tests' ) self.browse_tool_shed( url=self.url, strings_displayed=[ 'Test 0000 Basic Repository Features 1', 'Test 0000 Basic Repository Features 2' ] ) def test_0015_browse_test_0000_category( self ): '''Browse the category created in test 0000. It should contain the filtering_0000 repository also created in that test.''' category = self.test_db_util.get_category_by_name( 'Test 0000 Basic Repository Features 1' ) self.browse_category( category, strings_displayed=[ 'filtering_0000' ] ) def test_0020_preview_filtering_repository( self ): '''Load the preview page for the filtering_0000 repository in the tool shed.''' self.preview_repository_in_tool_shed( 'filtering_0000', common.test_user_1_name, strings_displayed=[ 'filtering_0000', 'Valid tools' ] ) def test_0025_install_filtering_repository( self ): self.install_repository( 'filtering_0000', common.test_user_1_name, 'Test 0000 Basic Repository Features 1', new_tool_panel_section_label='test_1000' ) installed_repository = self.test_db_util.get_installed_repository_by_name_owner( 'filtering_0000', common.test_user_1_name ) strings_displayed = [ 'filtering_0000', "Galaxy's filtering tool", 'user1', self.url.replace( 'http://', '' ), str( installed_repository.installed_changeset_revision ) ] self.display_galaxy_browse_repositories_page( strings_displayed=strings_displayed ) strings_displayed.extend( [ 'Installed tool shed repository', 'Valid tools', 'Filter1' ] ) self.display_installed_repository_manage_page( installed_repository, strings_displayed=strings_displayed ) self.verify_tool_metadata_for_installed_repository( installed_repository ) def test_0030_install_filtering_repository_again( self ): '''Attempt to install the already installed filtering repository.''' installed_repository = self.test_db_util.get_installed_repository_by_name_owner( 'filtering_0000', common.test_user_1_name ) # The page displayed after installation is the ajaxian "Montior installing tool shed repositories" page. Since the filter # repository was already installed, nothing will be in the process of being installed, so the grid will not display 'filtering_0000'. post_submit_strings_not_displayed = [ 'filtering_0000' ] self.install_repository( 'filtering_0000', common.test_user_1_name, 'Test 0000 Basic Repository Features 1', post_submit_strings_not_displayed=post_submit_strings_not_displayed ) strings_displayed = [ 'filtering_0000', "Galaxy's filtering tool", 'user1', self.url.replace( 'http://', '' ), str( installed_repository.installed_changeset_revision ) ] self.display_installed_repository_manage_page( installed_repository, strings_displayed=strings_displayed ) self.display_galaxy_browse_repositories_page( strings_displayed=strings_displayed ) def test_0035_verify_installed_repository_metadata( self ): '''Verify that resetting the metadata on an installed repository does not change the metadata.''' self.verify_installed_repository_metadata_unchanged( 'filtering_0000', common.test_user_1_name )