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Source code for tool_shed.test.functional.test_0030_repository_dependency_revisions

from ..base import common
from ..base.api import skip_if_api_v2
from ..base.twilltestcase import ShedTwillTestCase

column_maker_repository_name = "column_maker_0030"
column_maker_repository_description = "Add column"
column_maker_repository_long_description = "Compute an expression on every row"

emboss_repository_name = "emboss_0030"
emboss_5_repository_name = "emboss_5_0030"
emboss_6_repository_name = "emboss_6_0030"
emboss_repository_description = "Galaxy wrappers for Emboss version 5.0.0 tools for test 0030"
emboss_repository_long_description = "Galaxy wrappers for Emboss version 5.0.0 tools for test 0030"


[docs]class TestRepositoryDependencyRevisions(ShedTwillTestCase): """Test dependencies on different revisions of a repository."""
[docs] def test_0000_initiate_users(self): """Create necessary user accounts.""" self.login(email=common.test_user_1_email, username=common.test_user_1_name) self.login(email=common.admin_email, username=common.admin_username, explicit_logout=True)
[docs] def test_0005_create_category(self): """Create a category for this test suite""" self.create_category( name="Test 0030 Repository Dependency Revisions", description="Testing repository dependencies by revision." )
[docs] def test_0010_create_emboss_5_repository(self): """Create and populate the emboss_5_0030 repository.""" self.login(email=common.test_user_1_email, username=common.test_user_1_name) category = self.populator.get_category_with_name("Test 0030 Repository Dependency Revisions") repository = self.get_or_create_repository( name=emboss_5_repository_name, description=emboss_repository_description, long_description=emboss_repository_long_description, owner=common.test_user_1_name, category=category, ) self.commit_tar_to_repository(repository, "emboss/emboss.tar", commit_message="Uploaded tool tarball.")
[docs] def test_0015_create_emboss_6_repository(self): """Create and populate the emboss_6_0030 repository.""" self.login(email=common.test_user_1_email, username=common.test_user_1_name) category = self.populator.get_category_with_name("Test 0030 Repository Dependency Revisions") repository = self.get_or_create_repository( name=emboss_6_repository_name, description=emboss_repository_description, long_description=emboss_repository_long_description, owner=common.test_user_1_name, category=category, ) self.commit_tar_to_repository( repository, "emboss/emboss.tar", commit_message="Uploaded tool tarball.", )
[docs] def test_0020_create_dependent_repository(self): """Create and populate the emboss_datatypes_0030 repository.""" self.login(email=common.test_user_1_email, username=common.test_user_1_name) category = self.populator.get_category_with_name("Test 0030 Repository Dependency Revisions") repository = self.get_or_create_repository( name=column_maker_repository_name, description=column_maker_repository_description, long_description=column_maker_repository_long_description, owner=common.test_user_1_name, category=category, ) if self.repository_is_new(repository): self.commit_tar_to_repository( repository, "column_maker/column_maker.tar", commit_message="Uploaded bismark tarball.", )
[docs] def test_0025_create_emboss_repository(self): """Create and populate the emboss_0030 repository.""" self.login(email=common.test_user_1_email, username=common.test_user_1_name) category = self.populator.get_category_with_name("Test 0030 Repository Dependency Revisions") 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=category, ) self.commit_tar_to_repository( repository, "emboss/emboss.tar", commit_message="Uploaded the tool tarball.", )
[docs] def test_0030_generate_repository_dependencies_for_emboss_5(self): """Generate a repository_dependencies.xml file specifying emboss_datatypes and upload it to the emboss_5 repository.""" column_maker_repository = self._get_repository_by_name_and_owner( column_maker_repository_name, common.test_user_1_name ) emboss_5_repository = self._get_repository_by_name_and_owner(emboss_5_repository_name, common.test_user_1_name) repository_dependencies_path = self.generate_temp_path("test_0030", additional_paths=["emboss5"]) column_maker_tuple = ( self.url, column_maker_repository.name, column_maker_repository.owner, self.get_repository_tip(column_maker_repository), ) self.create_repository_dependency( repository=emboss_5_repository, repository_tuples=[column_maker_tuple], filepath=repository_dependencies_path, )
[docs] def test_0035_generate_repository_dependencies_for_emboss_6(self): """Generate a repository_dependencies.xml file specifying emboss_datatypes and upload it to the emboss_6 repository.""" emboss_6_repository = self._get_repository_by_name_and_owner(emboss_6_repository_name, common.test_user_1_name) column_maker_repository = self._get_repository_by_name_and_owner( column_maker_repository_name, common.test_user_1_name ) repository_dependencies_path = self.generate_temp_path("test_0030", additional_paths=["emboss6"]) column_maker_tuple = ( self.url, column_maker_repository.name, column_maker_repository.owner, self.get_repository_tip(column_maker_repository), ) self.create_repository_dependency( repository=emboss_6_repository, repository_tuples=[column_maker_tuple], filepath=repository_dependencies_path, )
[docs] def test_0040_generate_repository_dependency_on_emboss_5(self): """Create and upload repository_dependencies.xml for the emboss_5_0030 repository.""" emboss_repository = self._get_repository_by_name_and_owner(emboss_repository_name, common.test_user_1_name) emboss_5_repository = self._get_repository_by_name_and_owner(emboss_5_repository_name, common.test_user_1_name) repository_dependencies_path = self.generate_temp_path("test_0030", additional_paths=["emboss", "5"]) emboss_tuple = ( self.url, emboss_5_repository.name, emboss_5_repository.owner, self.get_repository_tip(emboss_5_repository), ) self.create_repository_dependency( repository=emboss_repository, repository_tuples=[emboss_tuple], filepath=repository_dependencies_path )
[docs] def test_0045_generate_repository_dependency_on_emboss_6(self): """Create and upload repository_dependencies.xml for the emboss_6_0030 repository.""" emboss_repository = self._get_repository_by_name_and_owner(emboss_repository_name, common.test_user_1_name) emboss_6_repository = self._get_repository_by_name_and_owner(emboss_6_repository_name, common.test_user_1_name) repository_dependencies_path = self.generate_temp_path("test_0030", additional_paths=["emboss", "5"]) emboss_tuple = ( self.url, emboss_6_repository.name, emboss_6_repository.owner, self.get_repository_tip(emboss_6_repository), ) self.create_repository_dependency( repository=emboss_repository, repository_tuples=[emboss_tuple], filepath=repository_dependencies_path )
[docs] @skip_if_api_v2 def test_0050_verify_repository_dependency_revisions(self): """Verify that different metadata revisions of the emboss repository have different repository dependencies.""" repository = self._get_repository_by_name_and_owner(emboss_repository_name, common.test_user_1_name) repository_metadata = [ (metadata.metadata, metadata.changeset_revision) for metadata in self.get_repository_metadata(repository) ] column_maker_repository = self._get_repository_by_name_and_owner( column_maker_repository_name, common.test_user_1_name ) column_maker_tip = self.get_repository_tip(column_maker_repository) strings_displayed = [] # Iterate through all metadata revisions and check for repository dependencies. for _metadata, changeset_revision in repository_metadata: # Add the dependency description and bismark repository details to the strings to check. strings_displayed = ["column_maker_0030", "user1", column_maker_tip] strings_displayed.extend(["Tool dependencies", "emboss", "5.0.0", "package"]) self.display_manage_repository_page( repository, changeset_revision=changeset_revision, strings_displayed=strings_displayed )
[docs] def test_0055_verify_repository_metadata(self): """Verify that resetting the metadata does not change it.""" emboss_repository = self._get_repository_by_name_and_owner(emboss_repository_name, common.test_user_1_name) emboss_5_repository = self._get_repository_by_name_and_owner(emboss_5_repository_name, common.test_user_1_name) emboss_6_repository = self._get_repository_by_name_and_owner(emboss_6_repository_name, common.test_user_1_name) column_maker_repository = self._get_repository_by_name_and_owner( column_maker_repository_name, common.test_user_1_name ) for repository in [emboss_repository, emboss_5_repository, emboss_6_repository, column_maker_repository]: self.verify_unchanged_repository_metadata(repository)