toil 5.12.0__py3-none-any.whl → 6.1.0a1__py3-none-any.whl

toil/wdl/wdl_types.py

@@ -1,243 +0,0 @@
-from abc import ABC
-from typing import Any, Dict, Optional
-
-from toil.job import Promise
-
-
-class WDLRuntimeError(RuntimeError):
-    pass
-
-
-class WDLType:
-    """
-    Represents a primitive or compound WDL type:
-
-    https://github.com/openwdl/wdl/blob/main/versions/development/SPEC.md#types
-    """
-
-    def __init__(self, optional: bool = False):
-        self.optional = optional
-
-    @property
-    def name(self) -> str:
-        """
-        Type name as string. Used in display messages / 'mappings.out' if dev
-        mode is enabled.
-        """
-        raise NotImplementedError
-
-    @property
-    def default_value(self) -> Optional[str]:
-        """
-        Default value if optional.
-        """
-        return None
-
-    def create(self, value: Any, output: bool = False) -> Any:
-        """
-        Calls at runtime. Returns an instance of the current type. An error may
-        be raised if the value is not in the correct format.
-
-        :param value: a Python object
-        """
-        if value is None:
-            # check if input is in fact an optional.
-            if self.optional:
-                return self.default_value
-            else:
-                raise WDLRuntimeError(f"Required input for '{self.name}' type not specified.")
-
-        if isinstance(value, Promise):
-            return value
-
-        return self._create(value)
-
-    def _create(self, value: Any) -> Any:
-        raise NotImplementedError
-
-    def __eq__(self, other: Any) -> bool:
-        return self.name.__eq__(other)
-
-    def __str__(self) -> str:
-        return self.name.__str__()
-
-    def __repr__(self) -> str:
-        return self.name.__repr__()
-
-
-class WDLCompoundType(WDLType, ABC):
-    """
-    Represents a WDL compound type.
-    """
-
-
-class WDLStringType(WDLType):
-    """ Represents a WDL String primitive type."""
-
-    @property
-    def name(self) -> str:
-        return 'String'
-
-    @property
-    def default_value(self) -> str:
-        return ''
-
-    def _create(self, value: Any) -> Any:
-        return str(value)
-
-
-class WDLIntType(WDLType):
-    """ Represents a WDL Int primitive type."""
-
-    @property
-    def name(self) -> str:
-        return 'Int'
-
-    def _create(self, value: Any) -> Any:
-        return int(value)
-
-
-class WDLFloatType(WDLType):
-    """ Represents a WDL Float primitive type."""
-
-    @property
-    def name(self) -> str:
-        return 'Float'
-
-    def _create(self, value: Any) -> Any:
-        return float(value)
-
-
-class WDLBooleanType(WDLType):
-    """ Represents a WDL Boolean primitive type."""
-
-    @property
-    def name(self) -> str:
-        return 'Boolean'
-
-    def _create(self, value: Any) -> Any:
-        return True if value else False
-
-
-class WDLFileType(WDLType):
-    """ Represents a WDL File primitive type."""
-
-    @property
-    def name(self) -> str:
-        return 'File'
-
-    @property
-    def default_value(self) -> str:
-        return ''
-
-    def _create(self, value: Any) -> Any:
-        if isinstance(value, (WDLFile, Promise)):
-            # return the original file if it's passed from task to task.
-            return value
-
-        return WDLFile(file_path=value, imported=False)
-
-
-class WDLArrayType(WDLCompoundType):
-    """ Represents a WDL Array compound type."""
-
-    def __init__(self, element: WDLType, optional: bool = False):
-        super().__init__(optional)
-        self.element = element
-
-    @property
-    def name(self) -> str:
-        return f'Array[{self.element.name}]'
-
-    def _create(self, value: Any) -> Any:
-        if not isinstance(value, list):
-            raise WDLRuntimeError(f"Expected an array input for Array, but got '{type(value)}'")
-
-        return [self.element.create(val) for val in value]
-
-
-class WDLPairType(WDLCompoundType):
-    """ Represents a WDL Pair compound type."""
-
-    def __init__(self, left: WDLType, right: WDLType, optional: bool = False):
-        super().__init__(optional)
-        self.left = left
-        self.right = right
-
-    @property
-    def name(self) -> str:
-        return f'Pair[{self.left.name}, {self.right.name}]'
-
-    def _create(self, value: Any) -> Any:
-        if isinstance(value, WDLPair):
-            return value
-        elif isinstance(value, tuple):
-            if len(value) != 2:
-                raise WDLRuntimeError('Only support Pair len == 2')
-            left, right = value
-        elif isinstance(value, dict):
-            if 'left' not in value or 'right' not in value:
-                raise WDLRuntimeError('Pair needs \'left\' and \'right\' keys')
-            left = value.get('left')
-            right = value.get('right')
-        else:
-            raise WDLRuntimeError(f"Expected a pair input for Pair, but got '{type(value)}'")
-
-        return WDLPair(self.left.create(left), self.right.create(right))
-
-
-class WDLMapType(WDLCompoundType):
-    """ Represents a WDL Map compound type."""
-
-    def __init__(self, key: WDLType, value: WDLType, optional: bool = False):
-        super().__init__(optional)
-        self.key = key
-        self.value = value
-
-    @property
-    def name(self) -> str:
-        return f'Map[{self.key.name}, {self.value.name}]'
-
-    def _create(self, value: Any) -> Any:
-        if not isinstance(value, dict):
-            raise WDLRuntimeError(f"Expected a map input for Map, but got '{type(value)}'")
-
-        return {self.key.create(k): self.value.create(v) for k, v in value.items()}
-
-
-class WDLFile:
-    """
-    Represents a WDL File.
-    """
-    def __init__(self, file_path: str, file_name: Optional[str] = None, imported: bool = False):
-        """
-        :param file_path: Path to file.
-        :param file_name: Optional. Preserved file name.
-        :param imported: If True, this file has been imported to the fileStore
-                              via fileStore.importFile().
-        """
-        self.file_path = file_path
-        self.file_name = file_name
-        self.imported = imported
-
-
-class WDLPair:
-    """
-    Represents a WDL Pair literal defined at
-    https://github.com/openwdl/wdl/blob/main/versions/development/SPEC.md#pair-literals
-    """
-
-    def __init__(self, left: Any, right: Any):
-        self.left = left
-        self.right = right
-
-    def to_dict(self) -> Dict[str, Any]:
-        return {'left': self.left, 'right': self.right}
-
-    def __eq__(self, other: Any) -> Any:
-        if not isinstance(other, WDLPair):
-            return False
-        return self.left == other.left and self.right == other.right
-
-    def __repr__(self) -> str:
-        return str(self.to_dict())

toil-5.12.0.dist-info/RECORD

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