def test_is_cwl_file_type_not_files():
test_types = [
"int",
"string",
"float",
["null", "string"],
{
"type": "enum",
"symbols": [1, 2]
},
{
"type": "enum",
"symbols": ["A", "B"]
},
{
"type": "array",
"items": "string"
},
{
"type": "array",
"items": "int"
},
["null", {
"type": "array",
"items": "string"
}],
]
for i, io_type in enumerate(test_types):
io_info = {"name": "test-{}".format(i), "type": io_type}
assert not is_cwl_file_type(io_info), "Test [{}]: {}".format(
i, io_info)
def __init__(
self,
builder, # type: Builder
joborder, # type: Dict[Text, Union[Dict[Text, Any], List, Text, None]]
requirements, # type: List[Dict[Text, Text]]
hints, # type: List[Dict[Text, Text]]
name, # type: Text
wps_process, # type: WpsProcessInterface
expected_outputs, # type: List[CWL_Output_Type]
): # type: (...) -> None
super(WpsWorkflowJob, self).__init__(builder, joborder, None,
requirements, hints, name)
self.wps_process = wps_process
self.expected_outputs = {
} # type: CWL_ExpectedOutputs # {id: file-pattern}
for output in expected_outputs:
# TODO Should we support something else?
if is_cwl_file_type(output):
# Expecting output to look like this
# output = {"id": "file:///tmp/random_path/process_name#output_id,
# "type": "File",
# "outputBinding": {"glob": output_name }
# }
output_id = shortname(output["id"])
self.expected_outputs[output_id] = output["outputBinding"][
"glob"]
def test_is_cwl_file_type_none_one_or_many_files():
io_info = {
"name": "test",
"type": ["null", "File", {
"type": "array",
"items": "File"
}]
}
assert is_cwl_file_type(io_info)
def test_is_cwl_file_type_file_array():
io_info = {
"name": "test",
"type": {"type": "array", "items": "File"}
}
assert is_cwl_file_type(io_info)
def test_is_cwl_file_type_potential_file():
io_info = {
"name": "test",
"type": ["null", "File"]
}
assert is_cwl_file_type(io_info)
def test_is_cwl_file_type_guaranteed_file():
io_info = {
"name": "test",
"type": "File"
}
assert is_cwl_file_type(io_info)
