forked from galaxyproject/galaxy
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test_libraries.py
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test_libraries.py
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from base import api
from base.populators import (
DatasetCollectionPopulator,
DatasetPopulator,
LibraryPopulator,
TestsDatasets,
wait_on_state
)
class LibrariesApiTestCase( api.ApiTestCase, TestsDatasets ):
def setUp( self ):
super( LibrariesApiTestCase, self ).setUp()
self.dataset_populator = DatasetPopulator( self.galaxy_interactor )
self.dataset_collection_populator = DatasetCollectionPopulator( self.galaxy_interactor )
self.library_populator = LibraryPopulator( self )
def test_create( self ):
data = dict( name="CreateTestLibrary" )
create_response = self._post( "libraries", data=data, admin=True )
self._assert_status_code_is( create_response, 200 )
library = create_response.json()
self._assert_has_keys( library, "name" )
assert library[ "name" ] == "CreateTestLibrary"
def test_delete( self ):
library = self.library_populator.new_library( "DeleteTestLibrary" )
create_response = self._delete( "libraries/%s" % library[ "id" ], admin=True )
self._assert_status_code_is( create_response, 200 )
library = create_response.json()
self._assert_has_keys( library, "deleted" )
assert library[ "deleted" ] is True
# Test undeleting
data = dict( undelete='true' )
create_response = self._delete( "libraries/%s" % library[ "id" ], data=data, admin=True )
library = create_response.json()
self._assert_status_code_is( create_response, 200 )
assert library[ "deleted" ] is False
def test_nonadmin( self ):
# Anons can't create libs
data = dict( name="CreateTestLibrary" )
create_response = self._post( "libraries", data=data, admin=False, anon=True )
self._assert_status_code_is( create_response, 403 )
# Anons can't delete libs
library = self.library_populator.new_library( "AnonDeleteTestLibrary" )
create_response = self._delete( "libraries/%s" % library[ "id" ], admin=False, anon=True )
self._assert_status_code_is( create_response, 403 )
# Anons can't update libs
data = dict( name="ChangedName", description="ChangedDescription", synopsis='ChangedSynopsis' )
create_response = self._patch( "libraries/%s" % library[ "id" ], data=data, admin=False, anon=True )
self._assert_status_code_is( create_response, 403 )
def test_update( self ):
library = self.library_populator.new_library( "UpdateTestLibrary" )
data = dict( name='ChangedName', description='ChangedDescription', synopsis='ChangedSynopsis' )
create_response = self._patch( "libraries/%s" % library[ "id" ], data=data, admin=True )
self._assert_status_code_is( create_response, 200 )
library = create_response.json()
self._assert_has_keys( library, 'name', 'description', 'synopsis' )
assert library['name'] == 'ChangedName'
assert library['description'] == 'ChangedDescription'
assert library['synopsis'] == 'ChangedSynopsis'
def test_create_private_library_permissions( self ):
library = self.library_populator.new_library( "PermissionTestLibrary" )
library_id = library[ "id" ]
role_id = self.library_populator.user_private_role_id()
self.library_populator.set_permissions( library_id, role_id )
create_response = self._create_folder( library )
self._assert_status_code_is( create_response, 200 )
def test_create_dataset_denied( self ):
library = self.library_populator.new_private_library( "ForCreateDatasets" )
folder_response = self._create_folder( library )
self._assert_status_code_is( folder_response, 200)
folder_id = folder_response.json()[0]['id']
history_id = self.dataset_populator.new_history()
hda_id = self.dataset_populator.new_dataset( history_id, content="1 2 3" )['id']
with self._different_user():
payload = {'from_hda_id': hda_id}
create_response = self._post( "folders/%s/contents" % folder_id, payload )
self._assert_status_code_is( create_response, 403 )
def test_create_dataset( self ):
library = self.library_populator.new_private_library( "ForCreateDatasets" )
payload, files = self.library_populator.create_dataset_request( library, file_type="txt", contents="create_test" )
create_response = self._post( "libraries/%s/contents" % library[ "id" ], payload, files=files )
self._assert_status_code_is( create_response, 200 )
library_datasets = create_response.json()
assert len( library_datasets ) == 1
library_dataset = library_datasets[ 0 ]
def show():
return self._get( "libraries/%s/contents/%s" % ( library[ "id" ], library_dataset[ "id" ] ) )
wait_on_state( show, assert_ok=True )
library_dataset = show().json()
self._assert_has_keys( library_dataset, "peek", "data_type" )
assert library_dataset[ "peek" ].find("create_test") >= 0
assert library_dataset[ "file_ext" ] == "txt", library_dataset[ "file_ext" ]
def test_create_dataset_in_folder( self ):
library = self.library_populator.new_private_library( "ForCreateDatasets" )
folder_response = self._create_folder( library )
self._assert_status_code_is( folder_response, 200)
folder_id = folder_response.json()[0]['id']
history_id = self.dataset_populator.new_history()
hda_id = self.dataset_populator.new_dataset( history_id, content="1 2 3" )['id']
payload = {'from_hda_id': hda_id}
create_response = self._post( "folders/%s/contents" % folder_id, payload )
self._assert_status_code_is( create_response, 200 )
self._assert_has_keys( create_response.json(), "name", "id" )
def test_create_datasets_in_library_from_collection( self ):
library = self.library_populator.new_private_library( "ForCreateDatasetsFromCollection" )
folder_response = self._create_folder( library )
self._assert_status_code_is( folder_response, 200)
folder_id = folder_response.json()[0]['id']
history_id = self.dataset_populator.new_history()
hdca_id = self.dataset_collection_populator.create_list_in_history( history_id, contents=["xxx", "yyy"] ).json()["id"]
payload = {'from_hdca_id': hdca_id, 'create_type': 'file', 'folder_id': folder_id}
create_response = self._post( "libraries/%s/contents" % library['id'], payload )
self._assert_status_code_is(create_response, 200)
def test_create_datasets_in_folder_from_collection( self ):
library = self.library_populator.new_private_library( "ForCreateDatasetsFromCollection" )
history_id = self.dataset_populator.new_history()
hdca_id = self.dataset_collection_populator.create_list_in_history( history_id, contents=["xxx", "yyy"] ).json()["id"]
folder_response = self._create_folder( library )
self._assert_status_code_is( folder_response, 200)
folder_id = folder_response.json()[0]['id']
payload = {'from_hdca_id': hdca_id}
create_response = self._post( "folders/%s/contents" % folder_id, payload )
self._assert_status_code_is( create_response, 200 )
assert len(create_response.json()) == 2
# Also test that anything different from a flat dataset collection list
# is refused
hdca_pair_id = self.dataset_collection_populator.create_list_of_pairs_in_history( history_id).json()['id']
payload = {'from_hdca_id': hdca_pair_id}
create_response = self._post( "folders/%s/contents" % folder_id, payload )
self._assert_status_code_is( create_response, 501 )
assert create_response.json()['err_msg'] == 'Cannot add nested collections to library. Please flatten your collection first.'
def _create_folder( self, library ):
create_data = dict(
folder_id=library[ "root_folder_id" ],
create_type="folder",
name="New Folder",
)
return self._post( "libraries/%s/contents" % library[ "id" ], data=create_data )