niwrap-mrtrix 0.6.2__py3-none-any.whl → 0.7.0__py3-none-any.whl

niwrap_mrtrix/mrtrix/transformcompose.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 TRANSFORMCOMPOSE_METADATA = Metadata(
-    id="6d7295675afed0c75d67eae13a94d73c7b970c74.boutiques",
+    id="00dff5d1cb74f969e2ad40f5dbeaedf75a029491.boutiques",
     name="transformcompose",
     package="mrtrix",
     container_image_tag="mrtrix3/mrtrix3:3.0.4",
@@ -14,26 +14,39 @@ TRANSFORMCOMPOSE_METADATA = Metadata(
 
 
 TransformcomposeConfigParameters = typing.TypedDict('TransformcomposeConfigParameters', {
-    "__STYXTYPE__": typing.Literal["config"],
+    "@type": typing.NotRequired[typing.Literal["config"]],
+    "key": str,
+    "value": str,
+})
+TransformcomposeConfigParametersTagged = typing.TypedDict('TransformcomposeConfigParametersTagged', {
+    "@type": typing.Literal["config"],
     "key": str,
     "value": str,
 })
 
 
 TransformcomposeVariousStringParameters = typing.TypedDict('TransformcomposeVariousStringParameters', {
-    "__STYXTYPE__": typing.Literal["VariousString"],
+    "@type": typing.NotRequired[typing.Literal["VariousString"]],
+    "obj": str,
+})
+TransformcomposeVariousStringParametersTagged = typing.TypedDict('TransformcomposeVariousStringParametersTagged', {
+    "@type": typing.Literal["VariousString"],
     "obj": str,
 })
 
 
 TransformcomposeVariousFileParameters = typing.TypedDict('TransformcomposeVariousFileParameters', {
-    "__STYXTYPE__": typing.Literal["VariousFile"],
+    "@type": typing.NotRequired[typing.Literal["VariousFile"]],
+    "obj": InputPathType,
+})
+TransformcomposeVariousFileParametersTagged = typing.TypedDict('TransformcomposeVariousFileParametersTagged', {
+    "@type": typing.Literal["VariousFile"],
     "obj": InputPathType,
 })
 
 
 TransformcomposeParameters = typing.TypedDict('TransformcomposeParameters', {
-    "__STYXTYPE__": typing.Literal["transformcompose"],
+    "@type": typing.NotRequired[typing.Literal["mrtrix/transformcompose"]],
     "template": typing.NotRequired[InputPathType | None],
     "info": bool,
     "quiet": bool,
@@ -44,11 +57,25 @@ TransformcomposeParameters = typing.TypedDict('TransformcomposeParameters', {
     "help": bool,
     "version": bool,
     "input": list[InputPathType],
-    "output": typing.Union[TransformcomposeVariousStringParameters, TransformcomposeVariousFileParameters],
+    "output": typing.Union[TransformcomposeVariousStringParametersTagged, TransformcomposeVariousFileParametersTagged],
+})
+TransformcomposeParametersTagged = typing.TypedDict('TransformcomposeParametersTagged', {
+    "@type": typing.Literal["mrtrix/transformcompose"],
+    "template": typing.NotRequired[InputPathType | None],
+    "info": bool,
+    "quiet": bool,
+    "debug": bool,
+    "force": bool,
+    "nthreads": typing.NotRequired[int | None],
+    "config": typing.NotRequired[list[TransformcomposeConfigParameters] | None],
+    "help": bool,
+    "version": bool,
+    "input": list[InputPathType],
+    "output": typing.Union[TransformcomposeVariousStringParametersTagged, TransformcomposeVariousFileParametersTagged],
 })
 
 
-def dyn_cargs(
+def transformcompose_output_cargs_dyn_fn(
     t: str,
 ) -> typing.Any:
     """
@@ -60,14 +87,12 @@ def dyn_cargs(
         Build cargs function.
     """
     return {
-        "transformcompose": transformcompose_cargs,
-        "config": transformcompose_config_cargs,
         "VariousString": transformcompose_various_string_cargs,
         "VariousFile": transformcompose_various_file_cargs,
     }.get(t)
 
 
-def dyn_outputs(
+def transformcompose_output_outputs_dyn_fn(
     t: str,
 ) -> typing.Any:
     """
@@ -85,7 +110,7 @@ def dyn_outputs(
 def transformcompose_config_params(
     key: str,
     value: str,
-) -> TransformcomposeConfigParameters:
+) -> TransformcomposeConfigParametersTagged:
     """
     Build parameters.
     
@@ -96,7 +121,7 @@ def transformcompose_config_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "config",
+        "@type": "config",
         "key": key,
         "value": value,
     }
@@ -118,14 +143,14 @@ def transformcompose_config_cargs(
     """
     cargs = []
     cargs.append("-config")
-    cargs.append(params.get("key"))
-    cargs.append(params.get("value"))
+    cargs.append(params.get("key", None))
+    cargs.append(params.get("value", None))
     return cargs
 
 
 def transformcompose_various_string_params(
     obj: str,
-) -> TransformcomposeVariousStringParameters:
+) -> TransformcomposeVariousStringParametersTagged:
     """
     Build parameters.
     
@@ -135,7 +160,7 @@ def transformcompose_various_string_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "VariousString",
+        "@type": "VariousString",
         "obj": obj,
     }
     return params
@@ -155,13 +180,13 @@ def transformcompose_various_string_cargs(
         Command-line arguments.
     """
     cargs = []
-    cargs.append(params.get("obj"))
+    cargs.append(params.get("obj", None))
     return cargs
 
 
 def transformcompose_various_file_params(
     obj: InputPathType,
-) -> TransformcomposeVariousFileParameters:
+) -> TransformcomposeVariousFileParametersTagged:
     """
     Build parameters.
     
@@ -171,7 +196,7 @@ def transformcompose_various_file_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "VariousFile",
+        "@type": "VariousFile",
         "obj": obj,
     }
     return params
@@ -191,13 +216,13 @@ def transformcompose_various_file_cargs(
         Command-line arguments.
     """
     cargs = []
-    cargs.append(execution.input_file(params.get("obj")))
+    cargs.append(execution.input_file(params.get("obj", None)))
     return cargs
 
 
 class TransformcomposeOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `transformcompose(...)`.
+    Output object returned when calling `TransformcomposeParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -205,7 +230,7 @@ class TransformcomposeOutputs(typing.NamedTuple):
 
 def transformcompose_params(
     input_: list[InputPathType],
-    output: typing.Union[TransformcomposeVariousStringParameters, TransformcomposeVariousFileParameters],
+    output: typing.Union[TransformcomposeVariousStringParametersTagged, TransformcomposeVariousFileParametersTagged],
     template: InputPathType | None = None,
     info: bool = False,
     quiet: bool = False,
@@ -215,7 +240,7 @@ def transformcompose_params(
     config: list[TransformcomposeConfigParameters] | None = None,
     help_: bool = False,
     version: bool = False,
-) -> TransformcomposeParameters:
+) -> TransformcomposeParametersTagged:
     """
     Build parameters.
     
@@ -240,7 +265,7 @@ def transformcompose_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "transformcompose",
+        "@type": "mrtrix/transformcompose",
         "info": info,
         "quiet": quiet,
         "debug": debug,
@@ -274,32 +299,32 @@ def transformcompose_cargs(
     """
     cargs = []
     cargs.append("transformcompose")
-    if params.get("template") is not None:
+    if params.get("template", None) is not None:
         cargs.extend([
             "-template",
-            execution.input_file(params.get("template"))
+            execution.input_file(params.get("template", None))
         ])
-    if params.get("info"):
+    if params.get("info", False):
         cargs.append("-info")
-    if params.get("quiet"):
+    if params.get("quiet", False):
         cargs.append("-quiet")
-    if params.get("debug"):
+    if params.get("debug", False):
         cargs.append("-debug")
-    if params.get("force"):
+    if params.get("force", False):
         cargs.append("-force")
-    if params.get("nthreads") is not None:
+    if params.get("nthreads", None) is not None:
         cargs.extend([
             "-nthreads",
-            str(params.get("nthreads"))
+            str(params.get("nthreads", None))
         ])
-    if params.get("config") is not None:
-        cargs.extend([a for c in [dyn_cargs(s["__STYXTYPE__"])(s, execution) for s in params.get("config")] for a in c])
-    if params.get("help"):
+    if params.get("config", None) is not None:
+        cargs.extend([a for c in [transformcompose_config_cargs(s, execution) for s in params.get("config", None)] for a in c])
+    if params.get("help", False):
         cargs.append("-help")
-    if params.get("version"):
+    if params.get("version", False):
         cargs.append("-version")
-    cargs.extend([execution.input_file(f) for f in params.get("input")])
-    cargs.extend(dyn_cargs(params.get("output")["__STYXTYPE__"])(params.get("output"), execution))
+    cargs.extend([execution.input_file(f) for f in params.get("input", None)])
+    cargs.extend(transformcompose_output_cargs_dyn_fn(params.get("output", None)["@type"])(params.get("output", None), execution))
     return cargs
 
 
@@ -324,9 +349,11 @@ def transformcompose_outputs(
 
 def transformcompose_execute(
     params: TransformcomposeParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> TransformcomposeOutputs:
     """
+    transformcompose
+    
     Compose any number of linear transformations and/or warps into a single
     transformation.
     
@@ -357,10 +384,12 @@ def transformcompose_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `TransformcomposeOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(TRANSFORMCOMPOSE_METADATA)
     params = execution.params(params)
     cargs = transformcompose_cargs(params, execution)
     ret = transformcompose_outputs(params, execution)
@@ -370,7 +399,7 @@ def transformcompose_execute(
 
 def transformcompose(
     input_: list[InputPathType],
-    output: typing.Union[TransformcomposeVariousStringParameters, TransformcomposeVariousFileParameters],
+    output: typing.Union[TransformcomposeVariousStringParametersTagged, TransformcomposeVariousFileParametersTagged],
     template: InputPathType | None = None,
     info: bool = False,
     quiet: bool = False,
@@ -383,6 +412,8 @@ def transformcompose(
     runner: Runner | None = None,
 ) -> TransformcomposeOutputs:
     """
+    transformcompose
+    
     Compose any number of linear transformations and/or warps into a single
     transformation.
     
@@ -432,8 +463,6 @@ def transformcompose(
     Returns:
         NamedTuple of outputs (described in `TransformcomposeOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(TRANSFORMCOMPOSE_METADATA)
     params = transformcompose_params(
         template=template,
         info=info,
@@ -447,18 +476,15 @@ def transformcompose(
         input_=input_,
         output=output,
     )
-    return transformcompose_execute(params, execution)
+    return transformcompose_execute(params, runner)
 
 
 __all__ = [
     "TRANSFORMCOMPOSE_METADATA",
-    "TransformcomposeConfigParameters",
     "TransformcomposeOutputs",
-    "TransformcomposeParameters",
-    "TransformcomposeVariousFileParameters",
-    "TransformcomposeVariousStringParameters",
     "transformcompose",
     "transformcompose_config_params",
+    "transformcompose_execute",
     "transformcompose_params",
     "transformcompose_various_file_params",
     "transformcompose_various_string_params",

niwrap_mrtrix/mrtrix/transformconvert.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 TRANSFORMCONVERT_METADATA = Metadata(
-    id="2e1de53beaf30dd05624a9e68d7f1150ea1e689a.boutiques",
+    id="d989e00db8a3092cc8404a7694ecd7d449c9f298.boutiques",
     name="transformconvert",
     package="mrtrix",
     container_image_tag="mrtrix3/mrtrix3:3.0.4",
@@ -14,14 +14,33 @@ TRANSFORMCONVERT_METADATA = Metadata(
 
 
 TransformconvertConfigParameters = typing.TypedDict('TransformconvertConfigParameters', {
-    "__STYXTYPE__": typing.Literal["config"],
+    "@type": typing.NotRequired[typing.Literal["config"]],
+    "key": str,
+    "value": str,
+})
+TransformconvertConfigParametersTagged = typing.TypedDict('TransformconvertConfigParametersTagged', {
+    "@type": typing.Literal["config"],
     "key": str,
     "value": str,
 })
 
 
 TransformconvertParameters = typing.TypedDict('TransformconvertParameters', {
-    "__STYXTYPE__": typing.Literal["transformconvert"],
+    "@type": typing.NotRequired[typing.Literal["mrtrix/transformconvert"]],
+    "info": bool,
+    "quiet": bool,
+    "debug": bool,
+    "force": bool,
+    "nthreads": typing.NotRequired[int | None],
+    "config": typing.NotRequired[list[TransformconvertConfigParameters] | None],
+    "help": bool,
+    "version": bool,
+    "input": list[str],
+    "operation": str,
+    "output": str,
+})
+TransformconvertParametersTagged = typing.TypedDict('TransformconvertParametersTagged', {
+    "@type": typing.Literal["mrtrix/transformconvert"],
     "info": bool,
     "quiet": bool,
     "debug": bool,
@@ -34,45 +53,12 @@ TransformconvertParameters = typing.TypedDict('TransformconvertParameters', {
     "operation": str,
     "output": str,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "transformconvert": transformconvert_cargs,
-        "config": transformconvert_config_cargs,
-    }.get(t)
-
-
-def dyn_outputs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build outputs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build outputs function.
-    """
-    return {
-        "transformconvert": transformconvert_outputs,
-    }.get(t)
 
 
 def transformconvert_config_params(
     key: str,
     value: str,
-) -> TransformconvertConfigParameters:
+) -> TransformconvertConfigParametersTagged:
     """
     Build parameters.
     
@@ -83,7 +69,7 @@ def transformconvert_config_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "config",
+        "@type": "config",
         "key": key,
         "value": value,
     }
@@ -105,14 +91,14 @@ def transformconvert_config_cargs(
     """
     cargs = []
     cargs.append("-config")
-    cargs.append(params.get("key"))
-    cargs.append(params.get("value"))
+    cargs.append(params.get("key", None))
+    cargs.append(params.get("value", None))
     return cargs
 
 
 class TransformconvertOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `transformconvert(...)`.
+    Output object returned when calling `TransformconvertParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -132,7 +118,7 @@ def transformconvert_params(
     config: list[TransformconvertConfigParameters] | None = None,
     help_: bool = False,
     version: bool = False,
-) -> TransformconvertParameters:
+) -> TransformconvertParametersTagged:
     """
     Build parameters.
     
@@ -157,7 +143,7 @@ def transformconvert_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "transformconvert",
+        "@type": "mrtrix/transformconvert",
         "info": info,
         "quiet": quiet,
         "debug": debug,
@@ -190,28 +176,28 @@ def transformconvert_cargs(
     """
     cargs = []
     cargs.append("transformconvert")
-    if params.get("info"):
+    if params.get("info", False):
         cargs.append("-info")
-    if params.get("quiet"):
+    if params.get("quiet", False):
         cargs.append("-quiet")
-    if params.get("debug"):
+    if params.get("debug", False):
         cargs.append("-debug")
-    if params.get("force"):
+    if params.get("force", False):
         cargs.append("-force")
-    if params.get("nthreads") is not None:
+    if params.get("nthreads", None) is not None:
         cargs.extend([
             "-nthreads",
-            str(params.get("nthreads"))
+            str(params.get("nthreads", None))
         ])
-    if params.get("config") is not None:
-        cargs.extend([a for c in [dyn_cargs(s["__STYXTYPE__"])(s, execution) for s in params.get("config")] for a in c])
-    if params.get("help"):
+    if params.get("config", None) is not None:
+        cargs.extend([a for c in [transformconvert_config_cargs(s, execution) for s in params.get("config", None)] for a in c])
+    if params.get("help", False):
         cargs.append("-help")
-    if params.get("version"):
+    if params.get("version", False):
         cargs.append("-version")
-    cargs.extend(params.get("input"))
-    cargs.append(params.get("operation"))
-    cargs.append(params.get("output"))
+    cargs.extend(params.get("input", None))
+    cargs.append(params.get("operation", None))
+    cargs.append(params.get("output", None))
     return cargs
 
 
@@ -230,16 +216,18 @@ def transformconvert_outputs(
     """
     ret = TransformconvertOutputs(
         root=execution.output_file("."),
-        output=execution.output_file(params.get("output")),
+        output=execution.output_file(params.get("output", None)),
     )
     return ret
 
 
 def transformconvert_execute(
     params: TransformconvertParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> TransformconvertOutputs:
     """
+    transformconvert
+    
     Convert linear transformation matrices.
     
     This command allows to convert transformation matrices provided by other
@@ -256,10 +244,12 @@ def transformconvert_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `TransformconvertOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(TRANSFORMCONVERT_METADATA)
     params = execution.params(params)
     cargs = transformconvert_cargs(params, execution)
     ret = transformconvert_outputs(params, execution)
@@ -282,6 +272,8 @@ def transformconvert(
     runner: Runner | None = None,
 ) -> TransformconvertOutputs:
     """
+    transformconvert
+    
     Convert linear transformation matrices.
     
     This command allows to convert transformation matrices provided by other
@@ -317,8 +309,6 @@ def transformconvert(
     Returns:
         NamedTuple of outputs (described in `TransformconvertOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(TRANSFORMCONVERT_METADATA)
     params = transformconvert_params(
         info=info,
         quiet=quiet,
@@ -332,15 +322,14 @@ def transformconvert(
         operation=operation,
         output=output,
     )
-    return transformconvert_execute(params, execution)
+    return transformconvert_execute(params, runner)
 
 
 __all__ = [
     "TRANSFORMCONVERT_METADATA",
-    "TransformconvertConfigParameters",
     "TransformconvertOutputs",
-    "TransformconvertParameters",
     "transformconvert",
     "transformconvert_config_params",
+    "transformconvert_execute",
     "transformconvert_params",
 ]