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Source code for tool_shed.test.functional.test_1190_complex_prior_installation_required

import os

from ..base.twilltestcase import common, ShedTwillTestCase

matplotlib_repository_name = 'package_matplotlib_1_2_0170'
matplotlib_repository_description = "Contains a tool dependency definition that downloads and compiles version 1.2.x of the the python matplotlib package."
matplotlib_repository_long_description = "This repository is intended to be defined as a complex repository dependency within a separate repository."

numpy_repository_name = 'package_numpy_1_7_0170'
numpy_repository_description = "Contains a tool dependency definition that downloads and compiles version 1.7 of the the python numpy package."
numpy_repository_long_description = "This repository is intended to be defined as a complex repository dependency within a separate repository."

category_name = 'Test 0170 Prior Installation Complex Dependencies'
category_description = 'Test 0170 Prior Installation Complex Dependencies'

'''
1. Create and populate repositories package_matplotlib_1_2_0170 and package_numpy_1_7_0170.
2. Create a complex repository dependency on package_numpy_1_7_0170, and upload this to package_matplotlib_1_2_0170.
3. Verify that package_matplotlib_1_2_0170 now depends on package_numpy_1_7_0170, and that the inherited tool dependency displays correctly.
4. Install package_matplotlib_1_2_0170 with repository dependencies.
5. Verify that the prior_installation_required attribute resulted in package_numpy_1_7_0170 being installed first.
'''

running_standalone = False


[docs]class TestComplexPriorInstallation(ShedTwillTestCase): '''Test features related to datatype converters.'''
[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) test_user_1 = self.test_db_util.get_user(common.test_user_1_email) assert test_user_1 is not None, 'Problem retrieving user with email %s from the database' % common.test_user_1_email self.test_db_util.get_private_role(test_user_1) self.login(email=common.admin_email, username=common.admin_username) admin_user = self.test_db_util.get_user(common.admin_email) assert admin_user is not None, 'Problem retrieving user with email %s from the database' % common.admin_email self.test_db_util.get_private_role(admin_user)
[docs] def test_0005_create_matplotlib_repository(self): '''Create and populate the package_matplotlib_1_2_0170 repository.''' ''' This is step 1 - Create and populate repositories package_matplotlib_1_2_0170 and package_numpy_1_7_0170. ''' global running_standalone 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=matplotlib_repository_name, description=matplotlib_repository_description, long_description=matplotlib_repository_long_description, owner=common.test_user_1_name, category_id=self.security.encode_id(category.id), strings_displayed=[]) if self.repository_is_new(repository): running_standalone = True self.upload_file(repository, filename='package_matplotlib/package_matplotlib_1_2.tar', filepath=None, valid_tools_only=False, uncompress_file=True, remove_repo_files_not_in_tar=False, commit_message='Uploaded matplotlib tool dependency tarball.', strings_displayed=['This repository currently contains a single file named <b>tool_dependencies.xml</b>'], strings_not_displayed=[])
[docs] def test_0010_create_numpy_repository(self): '''Create and populate the package_numpy_1_7_0170 repository.''' ''' This is step 1 - Create and populate repositories package_matplotlib_1_2_0170 and package_numpy_1_7_0170. ''' global running_standalone category = self.create_category(name=category_name, description=category_description) self.login(email=common.test_user_1_email, username=common.test_user_1_name) if running_standalone: repository = self.get_or_create_repository(name=numpy_repository_name, description=numpy_repository_description, long_description=numpy_repository_long_description, owner=common.test_user_1_name, category_id=self.security.encode_id(category.id), strings_displayed=[]) self.upload_file(repository, filename='package_numpy/package_numpy_1_7.tar', filepath=None, valid_tools_only=False, uncompress_file=True, remove_repo_files_not_in_tar=False, commit_message='Uploaded numpy tool dependency tarball.', strings_displayed=['This repository currently contains a single file named <b>tool_dependencies.xml</b>'], strings_not_displayed=[])
[docs] def test_0015_create_complex_repository_dependency(self): '''Create a dependency on package_numpy_1_7_0170.''' ''' This is step 2 - Create a complex repository dependency on package_numpy_1_7_0170, and upload this to package_matplotlib_1_2_0170. package_matplotlib_1_2_0170 should depend on package_numpy_1_7_0170, with prior_installation_required set to True. When matplotlib is selected for installation, the result should be that numpy is compiled and installed first. ''' global running_standalone numpy_repository = self.test_db_util.get_repository_by_name_and_owner(numpy_repository_name, common.test_user_1_name) matplotlib_repository = self.test_db_util.get_repository_by_name_and_owner(matplotlib_repository_name, common.test_user_1_name) # Generate the new dependency XML. Normally, the create_repository_dependency method would be used for this, but # it replaces any existing tool or repository dependency XML file with the generated contents. This is undesirable # in this case, because matplotlib already has an additional tool dependency definition that we don't want to # overwrite. new_xml = ' <package name="numpy" version="1.7">\n' new_xml += ' <repository toolshed="%s" name="%s" owner="%s" changeset_revision="%s" prior_installation_required="True" />\n' new_xml += ' </package>\n' url = self.url name = numpy_repository.name owner = numpy_repository.user.username if running_standalone: changeset_revision = self.get_repository_tip(numpy_repository) processed_xml = new_xml % (url, name, owner, changeset_revision) original_xml = open(self.get_filename('package_matplotlib/tool_dependencies.xml')).read() dependency_xml_path = self.generate_temp_path('test_0170', additional_paths=['matplotlib']) new_xml_file = os.path.join(dependency_xml_path, 'tool_dependencies.xml') open(new_xml_file, 'w').write(original_xml.replace('<!--NUMPY-->', processed_xml)) # Upload the generated complex repository dependency XML to the matplotlib repository. self.upload_file(matplotlib_repository, filename='tool_dependencies.xml', filepath=dependency_xml_path, valid_tools_only=True, uncompress_file=True, remove_repo_files_not_in_tar=False, commit_message='Uploaded complex repository dependency on numpy 1.7.', strings_displayed=[], strings_not_displayed=[])
[docs] def test_0020_verify_generated_dependency(self): '''Verify that matplotlib now has a package tool dependency and a complex repository dependency.''' ''' This is step 3 - Verify that package_matplotlib_1_2_0170 now depends on package_numpy_1_7_0170, and that the inherited tool dependency displays correctly. 'Inhherited' in this case means that matplotlib should show a package tool dependency on numpy version 1.7, and a repository dependency on the latest revision of package_numpy_1_7_0170. ''' numpy_repository = self.test_db_util.get_repository_by_name_and_owner(numpy_repository_name, common.test_user_1_name) matplotlib_repository = self.test_db_util.get_repository_by_name_and_owner(matplotlib_repository_name, common.test_user_1_name) changeset_revision = self.get_repository_tip(numpy_repository) self.check_repository_dependency(matplotlib_repository, depends_on_repository=numpy_repository) self.display_manage_repository_page(matplotlib_repository, strings_displayed=['numpy', '1.7', 'package', changeset_revision])
[docs] def test_0025_install_matplotlib_repository(self): '''Install the package_matplotlib_1_2_0170 repository.''' ''' This is step 4 - Install package_matplotlib_1_2_0170 with repository dependencies. ''' self.galaxy_login(email=common.admin_email, username=common.admin_username) matplotlib_repository = self.test_db_util.get_repository_by_name_and_owner(matplotlib_repository_name, common.test_user_1_name) preview_strings_displayed = ['package_matplotlib_1_2_0170', self.get_repository_tip(matplotlib_repository)] strings_displayed = ['Handle repository dependencies', numpy_repository_name, 'Never installed'] self.install_repository(matplotlib_repository_name, common.test_user_1_name, category_name, install_tool_dependencies=False, install_repository_dependencies=True, preview_strings_displayed=preview_strings_displayed, strings_displayed=strings_displayed, strings_not_displayed=[], post_submit_strings_displayed=['package_matplotlib_1_2_0170', 'New'], includes_tools_for_display_in_tool_panel=False)
[docs] def test_0030_verify_installation_order(self): '''Verify that the numpy repository was installed before the matplotlib repository.''' ''' This is step 5 - Verify that the prior_installation_required attribute resulted in package_numpy_1_7_0170 being installed first. In the previous step, package_matplotlib_1_2_0170 was selected for installation, but package_numpy_1_7_0170 had the prior_installation_required attribute set. Confirm that this resulted in package_numpy_1_7_0170 being installed before package_matplotlib_1_2_0170. ''' matplotlib_repository = self.test_db_util.get_installed_repository_by_name_owner(matplotlib_repository_name, common.test_user_1_name) numpy_repository = self.test_db_util.get_installed_repository_by_name_owner(numpy_repository_name, common.test_user_1_name) assert matplotlib_repository.update_time > numpy_repository.update_time, \ 'Error: package_numpy_1_7_0170 shows a later update time than package_matplotlib_1_2_0170'