Source code for tool_shed.test.functional.test_0110_invalid_simple_repository_dependencies

from ..base.twilltestcase import common, ShedTwillTestCase

datatypes_repository_name = 'emboss_datatypes_0110'
datatypes_repository_description = "Galaxy applicable data formats used by Emboss tools."
datatypes_repository_long_description = "Galaxy applicable data formats used by Emboss tools.  This repository contains no tools."

emboss_repository_name = 'emboss_0110'
emboss_repository_description = 'Galaxy wrappers for Emboss version 5.0.0 tools'
emboss_repository_long_description = 'Galaxy wrappers for Emboss version 5.0.0 tools'

category_name = 'Test 0110 Invalid Repository Dependencies'
category_desc = 'Test 0110 Invalid Repository Dependencies'


[docs]class TestBasicRepositoryDependencies(ShedTwillTestCase): '''Testing emboss 5 with repository dependencies.'''
[docs] def test_0000_initiate_users(self): """Create necessary user accounts and login as an admin user.""" 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' % common.test_user_1_email 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, 'Problem retrieving user with email %s from the database' % common.admin_email self.test_db_util.get_private_role(admin_user)
[docs] def test_0005_create_category(self): """Create a category for this test suite""" self.create_category(name=category_name, description=category_desc)
[docs] def test_0010_create_emboss_datatypes_repository_and_upload_tarball(self): '''Create and populate the emboss_datatypes repository.''' self.login(email=common.test_user_1_email, username=common.test_user_1_name) category = self.test_db_util.get_category_by_name(category_name) repository = self.get_or_create_repository(name=datatypes_repository_name, description=datatypes_repository_description, long_description=datatypes_repository_long_description, owner=common.test_user_1_name, category_id=self.security.encode_id(category.id), strings_displayed=[]) self.upload_file(repository, filename='emboss/datatypes/datatypes_conf.xml', filepath=None, valid_tools_only=True, uncompress_file=True, remove_repo_files_not_in_tar=False, commit_message='Uploaded datatypes_conf.xml.', strings_displayed=[], strings_not_displayed=[])
[docs] def test_0015_verify_datatypes_in_datatypes_repository(self): '''Verify that the emboss_datatypes repository contains datatype entries.''' repository = self.test_db_util.get_repository_by_name_and_owner(datatypes_repository_name, common.test_user_1_name) self.display_manage_repository_page(repository, strings_displayed=['Datatypes', 'equicktandem', 'hennig86', 'vectorstrip'])
[docs] def test_0020_create_emboss_5_repository_and_upload_files(self): '''Create and populate the emboss_5_0110 repository.''' category = self.test_db_util.get_category_by_name(category_name) repository = self.get_or_create_repository(name=emboss_repository_name, description=emboss_repository_description, long_description=emboss_repository_long_description, owner=common.test_user_1_name, category_id=self.security.encode_id(category.id), strings_displayed=[]) self.upload_file(repository, filename='emboss/emboss.tar', filepath=None, valid_tools_only=True, uncompress_file=True, remove_repo_files_not_in_tar=False, commit_message='Uploaded emboss tool tarball.', strings_displayed=[], strings_not_displayed=[])
[docs] def test_0025_generate_repository_dependency_with_invalid_url(self): '''Generate a repository dependency for emboss 5 with an invalid URL.''' dependency_path = self.generate_temp_path('test_0110', additional_paths=['simple']) datatypes_repository = self.test_db_util.get_repository_by_name_and_owner(datatypes_repository_name, common.test_user_1_name) emboss_repository = self.test_db_util.get_repository_by_name_and_owner(emboss_repository_name, common.test_user_1_name) url = 'http://http://this is not an url!' name = datatypes_repository.name owner = datatypes_repository.user.username changeset_revision = self.get_repository_tip(datatypes_repository) strings_displayed = ['Repository dependencies are currently supported only within the same tool shed'] repository_tuple = (url, name, owner, changeset_revision) self.create_repository_dependency(repository=emboss_repository, filepath=dependency_path, repository_tuples=[repository_tuple], strings_displayed=strings_displayed, complex=False)
[docs] def test_0030_generate_repository_dependency_with_invalid_name(self): '''Generate a repository dependency for emboss 5 with an invalid name.''' dependency_path = self.generate_temp_path('test_0110', additional_paths=['simple']) repository = self.test_db_util.get_repository_by_name_and_owner(datatypes_repository_name, common.test_user_1_name) emboss_repository = self.test_db_util.get_repository_by_name_and_owner(emboss_repository_name, common.test_user_1_name) url = self.url name = '!?invalid?!' owner = repository.user.username changeset_revision = self.get_repository_tip(repository) strings_displayed = ['because the name is invalid.'] repository_tuple = (url, name, owner, changeset_revision) self.create_repository_dependency(repository=emboss_repository, filepath=dependency_path, repository_tuples=[repository_tuple], strings_displayed=strings_displayed, complex=False)
[docs] def test_0035_generate_repository_dependency_with_invalid_owner(self): '''Generate a repository dependency for emboss 5 with an invalid owner.''' dependency_path = self.generate_temp_path('test_0110', additional_paths=['simple']) repository = self.test_db_util.get_repository_by_name_and_owner(datatypes_repository_name, common.test_user_1_name) emboss_repository = self.test_db_util.get_repository_by_name_and_owner(emboss_repository_name, common.test_user_1_name) url = self.url name = repository.name owner = '!?invalid?!' changeset_revision = self.get_repository_tip(repository) strings_displayed = ['because the owner is invalid.'] repository_tuple = (url, name, owner, changeset_revision) self.create_repository_dependency(repository=emboss_repository, filepath=dependency_path, repository_tuples=[repository_tuple], strings_displayed=strings_displayed, complex=False)
[docs] def test_0040_generate_repository_dependency_with_invalid_changeset_revision(self): '''Generate a repository dependency for emboss 5 with an invalid changeset revision.''' dependency_path = self.generate_temp_path('test_0110', additional_paths=['simple', 'invalid']) repository = self.test_db_util.get_repository_by_name_and_owner(datatypes_repository_name, common.test_user_1_name) emboss_repository = self.test_db_util.get_repository_by_name_and_owner(emboss_repository_name, common.test_user_1_name) url = self.url name = repository.name owner = repository.user.username changeset_revision = '!?invalid?!' strings_displayed = ['because the changeset revision is invalid.'] repository_tuple = (url, name, owner, changeset_revision) self.create_repository_dependency(repository=emboss_repository, filepath=dependency_path, repository_tuples=[repository_tuple], strings_displayed=strings_displayed, complex=False)