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Source code for tool_shed.test.functional.test_1100_install_updated_repository_dependencies

from ..base.twilltestcase import (
    common,
    ShedTwillTestCase,
)

column_repository_name = "column_maker_1087"
column_repository_description = "Add column"
column_repository_long_description = "Compute an expression on every row"

convert_repository_name = "convert_chars_1087"
convert_repository_description = "Convert delimiters"
convert_repository_long_description = "Convert delimiters to tab"

category_name = "Test 1087 Advanced Circular Dependencies"
category_description = "Test circular dependency features"


[docs]class TestRepositoryDependencies(ShedTwillTestCase): """Test installing a repository, then updating it to include repository dependencies."""
[docs] def test_0000_create_or_login_admin_user(self): """Create necessary user accounts and login as an admin user.""" self.galaxy_login(email=common.admin_email, username=common.admin_username) self.login(email=common.test_user_1_email, username=common.test_user_1_name) self.login(email=common.admin_email, username=common.admin_username)
[docs] def test_0005_create_and_populate_column_repository(self): """Create a category for this test suite and add repositories to it.""" category = self.create_category(name=category_name, description=category_description) self.login(email=common.test_user_1_email, username=common.test_user_1_name) repository = self.get_or_create_repository( name=column_repository_name, description=column_repository_description, long_description=column_repository_long_description, owner=common.test_user_1_name, category=category, strings_displayed=[], ) if self.repository_is_new(repository): self.upload_file( repository, filename="column_maker/column_maker.tar", filepath=None, valid_tools_only=True, uncompress_file=True, remove_repo_files_not_in_tar=False, commit_message="Uploaded column_maker tarball.", strings_displayed=[], strings_not_displayed=[], )
[docs] def test_0010_create_and_populate_convert_repository(self): """Create and populate the convert_chars repository.""" self.login(email=common.admin_email, username=common.admin_username) category = self.create_category(name=category_name, description=category_description) self.login(email=common.test_user_1_email, username=common.test_user_1_name) repository = self.get_or_create_repository( name=convert_repository_name, description=convert_repository_description, long_description=convert_repository_long_description, owner=common.test_user_1_name, category=category, strings_displayed=[], ) if self.repository_is_new(repository): self.upload_file( repository, filename="convert_chars/convert_chars.tar", filepath=None, valid_tools_only=True, uncompress_file=True, remove_repo_files_not_in_tar=False, commit_message="Uploaded convert_chars tarball.", strings_displayed=[], strings_not_displayed=[], )
[docs] def test_0015_install_and_uninstall_column_repository(self): """Install and uninstall the column_maker repository.""" self.galaxy_login(email=common.admin_email, username=common.admin_username) self.install_repository( column_repository_name, common.test_user_1_name, category_name, install_tool_dependencies=False, install_repository_dependencies=True, new_tool_panel_section_label="column_maker", strings_not_displayed=["install_repository_dependencies"], ) installed_column_repository = self.test_db_util.get_installed_repository_by_name_owner( column_repository_name, common.test_user_1_name ) self.uninstall_repository(installed_column_repository)
[docs] def test_0020_upload_dependency_xml(self): """Upload a repository_dependencies.xml file to column_maker that specifies convert_chars.""" self.login(email=common.test_user_1_email, username=common.test_user_1_name) convert_repository = self.test_db_util.get_repository_by_name_and_owner( convert_repository_name, common.test_user_1_name ) column_repository = self.test_db_util.get_repository_by_name_and_owner( column_repository_name, common.test_user_1_name ) repository_dependencies_path = self.generate_temp_path("test_1085", additional_paths=["column"]) convert_tuple = ( self.url, convert_repository.name, convert_repository.user.username, self.get_repository_tip(convert_repository), ) self.create_repository_dependency( repository=column_repository, repository_tuples=[convert_tuple], filepath=repository_dependencies_path )
[docs] def test_0025_verify_repository_dependency(self): """Verify that the new revision of column_maker now depends on convert_chars.""" convert_repository = self.test_db_util.get_repository_by_name_and_owner( convert_repository_name, common.test_user_1_name ) column_repository = self.test_db_util.get_repository_by_name_and_owner( column_repository_name, common.test_user_1_name ) self.check_repository_dependency(column_repository, convert_repository)
[docs] def test_0030_reinstall_column_repository(self): """Reinstall column_maker and verify that it now shows repository dependencies.""" self.galaxy_login(email=common.admin_email, username=common.admin_username) installed_column_repository = self.test_db_util.get_installed_repository_by_name_owner( column_repository_name, common.test_user_1_name ) convert_repository = self.test_db_util.get_repository_by_name_and_owner( convert_repository_name, common.test_user_1_name ) strings_displayed = [ "Handle repository dependencies", "convert_chars_1087", self.get_repository_tip(convert_repository), ] # Due to twill's limitations, only check for strings on the (redirected) reselect tool panel section page, don't actually reinstall. params = dict(id=self.security.encode_id(installed_column_repository.id)) url = "/admin_toolshed/restore_repository" self.visit_galaxy_url(url, params) self.check_for_strings(strings_displayed) strings_not_displayed = ["column_maker_1087"] self.display_galaxy_browse_repositories_page(strings_not_displayed=strings_not_displayed)