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Source code for tool_shed.test.functional.test_1460_data_managers

import logging

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

log = logging.getLogger(__name__)

category_name = "Test 1460 Data Manager"
category_description = "Test script 1460 for testing Data Managers"
data_manager_repository_name = "data_manager_1460"
data_manager_repository_description = "Repository that contains a Data Manager"
data_manager_repository_long_description = f"{data_manager_repository_name}: {data_manager_repository_description}"
data_manager_name = "testing_data_manager"
data_manager_tar_file = "1460_files/data_manager_files/test_data_manager.tar"

"""
1. Add a Data Manager to toolshed

2. install Data Manager

3. Check that Data Manager tool

"""

# TODO: Allow testing actual Execution of installed Data Manager Tool.


[docs]class TestDataManagers(ShedTwillTestCase): """Test installing a repository containing a Data Manager."""
[docs] def test_0000_initiate_users_and_category(self): """Create necessary user accounts and login as an admin user.""" self.login(email=common.admin_email, username=common.admin_username) self.create_category(name=category_name, description=category_description) self.login(email=common.test_user_2_email, username=common.test_user_2_name) self.login(email=common.test_user_1_email, username=common.test_user_1_name)
[docs] def test_0010_create_data_manager_repository(self): """Create and populate data_manager_1460. This is step 1 - Create repository data_manager_1460. Create and populate a repository that contains a Data manager. """ category = self.populator.get_category_with_name(category_name) repository = self.get_or_create_repository( name=data_manager_repository_name, description=data_manager_repository_description, long_description=data_manager_repository_long_description, owner=common.test_user_1_name, category=category, strings_displayed=[], ) # Upload the data manager files to the repository. self.upload_file( repository, filename=data_manager_tar_file, filepath=None, valid_tools_only=True, uncompress_file=True, remove_repo_files_not_in_tar=False, commit_message=f"Populate {data_manager_repository_name} with a data manager configuration.", strings_displayed=[], strings_not_displayed=[], )
[docs] def test_0020_install_data_manager_repository(self): """Install the data_manager_1460 repository to galaxy. This is step 3 - Attempt to install the repository into a galaxy instance, verify that it is installed. """ self.galaxy_login(email=common.admin_email, username=common.admin_username) post_submit_strings_displayed = [data_manager_repository_name] self.install_repository( data_manager_repository_name, common.test_user_1_name, category_name, install_tool_dependencies=True, post_submit_strings_displayed=post_submit_strings_displayed, )
[docs] def test_0030_verify_data_manager_tool(self): """Verify that the data_manager_1460 repository is installed and Data Manager tool appears in list in Galaxy.""" repository = self.test_db_util.get_installed_repository_by_name_owner( data_manager_repository_name, common.test_user_1_name ) strings_displayed = ["status", "jobs", data_manager_name] self.display_installed_jobs_list_page( repository, data_manager_names=data_manager_name, strings_displayed=strings_displayed )
[docs] def test_0040_verify_data_manager_data_table(self): """Verify that the installed repository populated shed_tool_data_table.xml and the sample files.""" self.verify_installed_repository_data_table_entries( required_data_table_entries=["data_manager_test_data_table"] )