def sliced_input_collection_structure(self, input_name):
unqualified_recurse = self.tool.profile < 18.09 and "|" not in input_name
def find_collection(input_dict, input_name):
for key, value in input_dict.items():
if key == input_name:
return value
if isinstance(value, dict):
if "|" in input_name:
prefix, rest_input_name = input_name.split("|", 1)
if key == prefix:
return find_collection(value, rest_input_name)
elif unqualified_recurse:
# Looking for "input1" instead of "cond|input1" for instance.
# See discussion on https://github.com/galaxyproject/galaxy/issues/6157.
unqualified_match = find_collection(value, input_name)
if unqualified_match:
return unqualified_match
input_collection = find_collection(self.example_params, input_name)
if input_collection is None:
raise Exception("Failed to find referenced collection in inputs.")
if not hasattr(input_collection, "collection"):
raise Exception("Referenced input parameter is not a collection.")
collection_type_description = self.trans.app.dataset_collections_service.collection_type_descriptions.for_collection_type(input_collection.collection.collection_type)
subcollection_mapping_type = None
if self.is_implicit_input(input_name):
subcollection_mapping_type = self.collection_info.subcollection_mapping_type(input_name)
return get_structure(input_collection, collection_type_description, leaf_subcollection_type=subcollection_mapping_type)
def sliced_input_collection_structure(self, input_name):
unqualified_recurse = self.tool.profile < 18.09 and "|" not in input_name
def find_collection(input_dict, input_name):
for key, value in input_dict.items():
if key == input_name:
return value
if isinstance(value, dict):
if "|" in input_name:
prefix, rest_input_name = input_name.split("|", 1)
if key == prefix:
return find_collection(value, rest_input_name)
elif unqualified_recurse:
# Looking for "input1" instead of "cond|input1" for instance.
# See discussion on https://github.com/galaxyproject/galaxy/issues/6157.
unqualified_match = find_collection(value, input_name)
if unqualified_match:
return unqualified_match
input_collection = find_collection(self.example_params, input_name)
if input_collection is None:
raise Exception("Failed to find referenced collection in inputs.")
if not hasattr(input_collection, "collection"):
raise Exception("Referenced input parameter is not a collection.")
collection_type_description = self.trans.app.dataset_collections_service.collection_type_descriptions.for_collection_type(input_collection.collection.collection_type)
subcollection_mapping_type = None
if self.is_implicit_input(input_name):
subcollection_mapping_type = self.collection_info.subcollection_mapping_type(input_name)
return get_structure(input_collection, collection_type_description, leaf_subcollection_type=subcollection_mapping_type)
def sliced_input_collection_structure(self, input_name):
input_collection = self.example_params[input_name]
collection_type_description = self.trans.app.dataset_collections_service.collection_type_descriptions.for_collection_type(input_collection.collection.collection_type)
subcollection_mapping_type = None
if self.is_implicit_input(input_name):
subcollection_mapping_type = self.collection_info.subcollection_mapping_type(input_name)
return get_structure(input_collection, collection_type_description, leaf_subcollection_type=subcollection_mapping_type)
def sliced_input_collection_structure(self, input_name):
input_collection = self.example_params[input_name]
collection_type_description = self.trans.app.dataset_collections_service.collection_type_descriptions.for_collection_type(
input_collection.collection.collection_type)
subcollection_mapping_type = None
if self.is_implicit_input(input_name):
subcollection_mapping_type = self.collection_info.subcollection_mapping_type(
input_name)
return get_structure(
input_collection,
collection_type_description,
leaf_subcollection_type=subcollection_mapping_type)