Source code for tool_shed.test.functional.test_1200_uninstall_and_reinstall_basic_repository

from ..base.twilltestcase import common, ShedTwillTestCase


[docs]class UninstallingAndReinstallingRepositories(ShedTwillTestCase):
    '''Test uninstalling and reinstalling a basic repository.'''

[docs]    def test_0000_initiate_users(self):
        """Create necessary user accounts."""
        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, f'Problem retrieving user with email {common.test_user_1_email} from the database'
        self.test_db_util.get_private_role(test_user_1)
        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, f'Problem retrieving user with email {common.admin_email} from the database'
        self.test_db_util.get_private_role(admin_user)
        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, f'Problem retrieving user with email {common.admin_email} from the database'
        self.test_db_util.get_galaxy_private_role(galaxy_admin_user)

[docs]    def test_0005_ensure_repositories_and_categories_exist(self):
        '''Create the 0000 category and upload the filtering repository to the tool shed, 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.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 for test 0000",
                                                   long_description="Long description of Galaxy's filtering tool for test 0000",
                                                   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=[])

[docs]    def test_0010_install_filtering_repository(self):
        '''Install the filtering repository into the Galaxy instance.'''
        self.galaxy_login(email=common.admin_email, username=common.admin_username)
        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 for test 0000",
                             'user1',
                             self.url.replace('http://', ''),
                             installed_repository.installed_changeset_revision]
        self.display_galaxy_browse_repositories_page(strings_displayed=strings_displayed)

[docs]    def test_0015_uninstall_filtering_repository(self):
        '''Uninstall the filtering repository.'''
        installed_repository = self.test_db_util.get_installed_repository_by_name_owner('filtering_0000', common.test_user_1_name)
        self.uninstall_repository(installed_repository)
        strings_not_displayed = ['filtering_0000',
                                 "Galaxy's filtering tool for test 0000",
                                 installed_repository.installed_changeset_revision]
        self.display_galaxy_browse_repositories_page(strings_not_displayed=strings_not_displayed)

[docs]    def test_0020_reinstall_filtering_repository(self):
        '''Reinstall the filtering repository.'''
        installed_repository = self.test_db_util.get_installed_repository_by_name_owner('filtering_0000', common.test_user_1_name)
        self.reinstall_repository(installed_repository)
        strings_displayed = ['filtering_0000',
                             "Galaxy's filtering tool for test 0000",
                             '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)

[docs]    def test_0025_deactivate_filtering_repository(self):
        '''Deactivate the filtering repository without removing it from disk.'''
        installed_repository = self.test_db_util.get_installed_repository_by_name_owner('filtering_0000', common.test_user_1_name)
        self.deactivate_repository(installed_repository)
        strings_not_displayed = ['filtering_0000',
                                 "Galaxy's filtering tool for test 0000",
                                 installed_repository.installed_changeset_revision]
        self.display_galaxy_browse_repositories_page(strings_not_displayed=strings_not_displayed)

[docs]    def test_0030_reactivate_filtering_repository(self):
        '''Reactivate the filtering repository and verify that it now shows up in the list of installed repositories.'''
        installed_repository = self.test_db_util.get_installed_repository_by_name_owner('filtering_0000', common.test_user_1_name)
        self.reactivate_repository(installed_repository)
        strings_displayed = ['filtering_0000',
                             "Galaxy's filtering tool for test 0000",
                             '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)