class InstalledRepositoryManagerTestCase(ToolShedRepoBaseTestCase):
def setUp(self):
super().setUp()
self.irm = InstalledRepositoryManager(self.app)
def test_uninstall_repository(self):
repository = self._setup_repository()
assert repository.uninstalled is False
self.irm.uninstall_repository(repository=repository, remove_from_disk=True)
assert repository.uninstalled is True
def test_deactivate_repository(self):
self._deactivate_repository()
def test_activate_repository(self):
repository = self._deactivate_repository()
self.irm.activate_repository(repository)
assert repository.status == self.app.install_model.ToolShedRepository.installation_status.INSTALLED
def test_create_or_update_tool_shed_repository_update(self):
repository = self._setup_repository()
self._create_or_update_tool_shed_repository(repository=repository, changeset_revision='2')
def test_create_or_update_tool_shed_repository_create(self):
self._create_or_update_tool_shed_repository(repository=None, changeset_revision='2')
def _create_or_update_tool_shed_repository(self, repository=None, changeset_revision='2'):
if repository is None:
repository = DEFAULT_TEST_REPO
new_repository = repository_util.create_or_update_tool_shed_repository(
app=self.app,
name=repository.name,
description=repository.description,
installed_changeset_revision=repository.installed_changeset_revision,
ctx_rev=repository.changeset_revision,
repository_clone_url='https://github.com/galaxyproject/example/test_tool/0.%s' % repository.installed_changeset_revision, # not needed if owner is given
status=repository.status,
metadata_dict=None,
current_changeset_revision=str(int(repository.changeset_revision) + 1),
owner=repository.owner,
dist_to_shed=False
)
assert new_repository.changeset_revision == changeset_revision
def _deactivate_repository(self):
repository = self._setup_repository()
assert repository.uninstalled is False
self.irm.uninstall_repository(repository=repository, remove_from_disk=False)
assert repository.uninstalled is False
assert repository.status == self.app.install_model.ToolShedRepository.installation_status.DEACTIVATED
return repository
def uninstall_repository(self, trans, id=None, **kwd):
"""
DELETE /api/tool_shed_repositories/id
DELETE /api/tool_shed_repositories/
:param id: encoded repository id. Either id or name, owner, changeset_revision and tool_shed_url need to be supplied
:param kwd:
'remove_from_disk': Remove repository from disk or deactivate repository. Defaults to `True` (= remove repository from disk).
'name': Repository name
'owner': Repository owner
'changeset_revision': Changeset revision to uninstall
'tool_shed_url': Tool Shed URL
"""
remove_from_disk = util.asbool(kwd.get('remove_from_disk', True))
if id:
try:
repository = get_tool_shed_repository_by_id(self.app, id)
except ValueError:
raise HTTPBadRequest(
detail="No repository with id '%s' found" % id)
else:
tsr_arguments = [
'name', 'owner', 'changeset_revision', 'tool_shed_url'
]
try:
tsr_arguments = {key: kwd[key] for key in tsr_arguments}
except KeyError as e:
raise HTTPBadRequest(detail="Missing required parameter '%s'" %
e.args[0])
repository = get_installed_repository(
app=self.app,
tool_shed=tsr_arguments['tool_shed_url'],
name=tsr_arguments['name'],
owner=tsr_arguments['owner'],
changeset_revision=tsr_arguments['changeset_revision'])
if not repository:
raise HTTPBadRequest(detail="Repository not found")
irm = InstalledRepositoryManager(app=self.app)
errors = irm.uninstall_repository(repository=repository,
remove_from_disk=remove_from_disk)
if not errors:
action = 'removed' if remove_from_disk else 'deactivated'
return {
'message':
f'The repository named {repository.name} has been {action}.'
}
else:
raise Exception(
f'Attempting to uninstall tool dependencies for repository named {repository.name} resulted in errors: {errors}'
)