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",
        )
        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._get_repository_by_name_and_owner(convert_repository_name, common.test_user_1_name)
        column_repository = self._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.owner,
            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._get_repository_by_name_and_owner(convert_repository_name, common.test_user_1_name)
        column_repository = self._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 it installs repository dependencies."""
        self.galaxy_login(email=common.admin_email, username=common.admin_username)
        strings_not_displayed = ["column_maker_1087"]
        self._assert_has_no_installed_repos_with_names(*strings_not_displayed)
        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",
        )
        self._assert_has_installed_repos_with_names("column_maker_1087", "convert_chars_1087")