import logging
from ..base import common
from ..base.twilltestcase import ShedTwillTestCase
column_repository_name = "column_maker_1085"
column_repository_description = "Add column"
column_repository_long_description = "Compute an expression on every row"
convert_repository_name = "convert_chars_1085"
convert_repository_description = "Convert delimiters"
convert_repository_long_description = "Convert delimiters to tab"
category_name = "Test 1085 Advanced Circular Dependencies"
category_description = "Test circular dependency features"
log = logging.getLogger(__name__)
[docs]class TestRepositoryDependencies(ShedTwillTestCase):
"""Testing the behavior of repository dependencies with tool panel sections."""
requires_galaxy = True
[docs] def test_0000_create_or_login_admin_user(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)
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.commit_tar_to_repository(
repository,
"column_maker/column_maker.tar",
commit_message="Uploaded column_maker tarball.",
)
[docs] def test_0010_create_and_populate_convert_repository(self):
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.commit_tar_to_repository(
repository,
"convert_chars/convert_chars.tar",
commit_message="Uploaded convert_chars tarball.",
)
[docs] def test_0015_create_and_upload_dependency_files(self):
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"])
repository_tuple = (
self.url,
convert_repository.name,
convert_repository.owner,
self.get_repository_tip(convert_repository),
)
self.create_repository_dependency(
repository=column_repository, repository_tuples=[repository_tuple], filepath=repository_dependencies_path
)
repository_tuple = (
self.url,
column_repository.name,
column_repository.owner,
self.get_repository_tip(column_repository),
)
self.create_repository_dependency(
repository=convert_repository, repository_tuples=[repository_tuple], filepath=repository_dependencies_path
)
[docs] def test_0020_install_repositories(self):
"""Install column_maker into column_maker tool panel section and install repository dependencies."""
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_convert_repository = self._get_installed_repository_by_name_owner(
convert_repository_name, common.test_user_1_name
)
self._refresh_tool_shed_repository(installed_convert_repository)
self._assert_has_installed_repos_with_names("convert_chars_1085", "column_maker_1085")
self._assert_is_not_missing_dependency(installed_convert_repository, "column_maker_1085")
[docs] def test_0025_uninstall_column_repository(self):
"""uninstall column_maker, verify same section"""
installed_column_repository = self._get_installed_repository_by_name_owner(
column_repository_name, common.test_user_1_name
)
self._uninstall_repository(installed_column_repository)
self.check_galaxy_repository_tool_panel_section(installed_column_repository, "column_maker")
[docs] def test_0030_uninstall_convert_repository(self):
installed_convert_repository = self._get_installed_repository_by_name_owner(
convert_repository_name, common.test_user_1_name
)
self._uninstall_repository(installed_convert_repository)
self._refresh_tool_shed_repository(installed_convert_repository)
self.check_galaxy_repository_tool_panel_section(installed_convert_repository, "column_maker")
[docs] def test_0035_reinstall_column_repository(self):
"""reinstall column_maker into new section 'new_column_maker' (no_changes = false), no dependencies"""
installed_column_repository = self._get_installed_repository_by_name_owner(
column_repository_name, common.test_user_1_name
)
self.reinstall_repository_api(
installed_column_repository,
install_tool_dependencies=False,
install_repository_dependencies=False,
new_tool_panel_section_label="new_column_maker",
)
self._assert_has_installed_repos_with_names("column_maker_1085")
[docs] def test_0040_reinstall_convert_repository(self):
"""reinstall convert_chars into new section 'new_convert_chars' (no_changes = false), no dependencies"""
installed_convert_repository = self._get_installed_repository_by_name_owner(
convert_repository_name, common.test_user_1_name
)
self.reinstall_repository_api(
installed_convert_repository,
install_tool_dependencies=False,
install_repository_dependencies=False,
new_tool_panel_section_label="new_convert_chars",
)
self._assert_has_installed_repos_with_names("convert_chars_1085")
# The following check fails somewhere around 5% of the time maybe on Jenkins.
# https://jenkins.galaxyproject.org/job/docker-toolshed/5578/
# https://jenkins.galaxyproject.org/job/docker-toolshed/5198/
# def test_0045_uninstall_and_verify_tool_panel_sections( self ):
# '''uninstall both and verify tool panel sections'''
# installed_convert_repository = self._get_installed_repository_by_name_owner( convert_repository_name,
# common.test_user_1_name )
# installed_column_repository = self._get_installed_repository_by_name_owner( column_repository_name,
# common.test_user_1_name )
# self._uninstall_repository( installed_convert_repository )
# self._uninstall_repository( installed_column_repository )
# self.test_db_util.ga_refresh( installed_convert_repository )
# self.test_db_util.ga_refresh( installed_column_repository )
# self.check_galaxy_repository_tool_panel_section( installed_column_repository, 'new_column_maker' )
# self.check_galaxy_repository_tool_panel_section( installed_convert_repository, 'new_convert_chars' )