def parse_wdl(wdl_path: Path,
import_dirs: Optional[Sequence[Path]] = (),
check_quant: bool = False,
**_) -> Document:
return Tree.load(str(wdl_path),
path=[str(path) for path in import_dirs],
check_quant=check_quant)
def load(uri: str, path: List[str] = [], check_quant: bool = True) -> Document:
"""
Parse a WDL document given filename/URI, recursively descend into imported documents, then typecheck the tasks and workflow.
:param path: local filesystem directories to search for imports, in addition to the current working directory
:param check_quant: set to ``False`` to relax static typechecking of the optional (?) and nonempty (+) type quantifiers. This is discouraged, but may be useful for older WDL workflows which assume less-rigorous static validation of these annotations.
"""
return Tree.load(uri, path, check_quant)
def _get_workflow_name(self, wdl_path: Path, kwargs: dict):
if "workflow_name" in kwargs:
return kwargs["workflow_name"]
elif Tree:
if "check_quant" not in kwargs:
kwargs["check_quant"] = False
doc = Tree.load(str(wdl_path),
path=[str(path) for path in self.import_dirs],
**kwargs)
return doc.workflow.name
else: # TODO: test this
return safe_string(wdl_path.stem)