def post(self):
"""
Get Experiments by JSON object
"""
args = request.get_json()
search_query = SearchQuery()
search_query.set_params(args)
search_result = self.gxdhtexperiment_service.summary_search(search_query)
return search_result.serialize()
def get(self):
"""
Get Experiments by Parameters
"""
args = gxdhtexperiment_parser.parse_args()
search_query = SearchQuery()
search_query.set_params(args)
search_result = self.gxdhtexperiment_service.summary_search(search_query)
return search_result.serialize()
def _perform_query(self, args):
search_query = SearchQuery()
if not args:
search_query.paginator = Paginator()
search_query.paginator.page_size = 100
search_query.set_params(args)
search_result = self.mgitype_service.search(search_query)
return search_result.serialize()
def post(self):
"""
Search EMAPA terms
"""
search_query = SearchQuery()
search_query.set_params(request.get_json())
search_results = self.vocterm_service.search_emapa_terms(search_query)
return search_results.serialize()
def get(self):
"""
Search Users
"""
args = user_parser.parse_args()
search_query = SearchQuery()
search_query.set_params(args)
search_results = self.user_service.search(search_query)
return search_results.serialize()
def get(self):
"""
Search Users
"""
args = user_parser.parse_args()
search_query = SearchQuery()
search_query.set_params(args)
search_results = self.user_service.search(search_query)
return search_results.serialize()
class SearchQueryParamValidatorTest(unittest.TestCase):
"""
Test how SearchQuery validates query params
"""
def setUp(self):
self.search_query = SearchQuery()
# False cases
def test_none(self):
self.assertFalse(
self.search_query._is_value_not_empty(None)
)
def test_empty_string(self):
self.assertFalse(
self.search_query._is_value_not_empty("")
)
def test_empty_list(self):
self.assertFalse(
self.search_query._is_value_not_empty([])
)
# True / valid cases
def test_boolean_false(self):
self.assertTrue(
self.search_query._is_value_not_empty(False)
)
def test_boolean_true(self):
self.assertTrue(
self.search_query._is_value_not_empty(True)
)
def test_string(self):
self.assertTrue(
self.search_query._is_value_not_empty("value")
)
def test_list(self):
self.assertTrue(
self.search_query._is_value_not_empty(["value"])
)
def test_list_with_empty_item(self):
self.assertTrue(
self.search_query._is_value_not_empty([""])
)
def test_list_with_none_item(self):
self.assertTrue(
self.search_query._is_value_not_empty([None])
)
def post(self):
"""
Search GxdIndexRecords
"""
search_query = SearchQuery()
search_query.set_params(request.json)
# set a limit on the results
paginator = Paginator()
paginator.page_size = 2000
search_query.paginator = paginator
search_results = self.gxdindex_service.search(search_query)
app.logger.debug(search_results.serialize())
return search_results.serialize()
def post(self):
"""
Search GxdIndexRecords
"""
search_query = SearchQuery()
search_query.set_params(request.json)
# set a limit on the results
paginator = Paginator()
paginator.page_size = 2000
search_query.paginator = paginator
search_results = self.gxdindex_service.search(search_query)
app.logger.debug(search_results.serialize())
return search_results.serialize()
def get_valid_markers_by_symbol(self, symbol):
"""
Retrieve list of valid markers by symbol
"""
search_query = SearchQuery()
search_query.set_param('symbol', symbol)
# restrict to official and withdrawn
search_query.set_param('_marker_status_keys', [1,2])
# only search mouse
search_query.set_param('_organism_keys', [1])
search_results = self.marker_dao.search(search_query)
markers = search_results.items
batchLoadAttribute(markers, 'current_markers')
batchLoadAttribute(markers, 'featuretype_vocterms')
ValidMarkerSortHelper().sort(markers)
# convert db models to domain objects
search_results.items = convert_models(markers, SmallMarker)
return search_results
def setUp(self):
self.search_query = SearchQuery()
def _get_emapa_term_results_count(self, term_id):
search_query = SearchQuery()
search_query.set_param("direct_structure_id", term_id)
count = self.gxdresult_dao.get_search_count(search_query)
return count