niwrap-mrtrix 0.6.3__py3-none-any.whl → 0.7.0__py3-none-any.whl

niwrap_mrtrix/mrtrix/label2mesh.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 LABEL2MESH_METADATA = Metadata(
-    id="cdcb0167501c7277846754252872bdd4aafe4ee0.boutiques",
+    id="6c52afdd4cc628f3b852b8dbd81f4fe3c2968fb8.boutiques",
     name="label2mesh",
     package="mrtrix",
     container_image_tag="mrtrix3/mrtrix3:3.0.4",
@@ -14,14 +14,33 @@ LABEL2MESH_METADATA = Metadata(
 
 
 Label2meshConfigParameters = typing.TypedDict('Label2meshConfigParameters', {
-    "__STYXTYPE__": typing.Literal["config"],
+    "@type": typing.NotRequired[typing.Literal["config"]],
+    "key": str,
+    "value": str,
+})
+Label2meshConfigParametersTagged = typing.TypedDict('Label2meshConfigParametersTagged', {
+    "@type": typing.Literal["config"],
     "key": str,
     "value": str,
 })
 
 
 Label2meshParameters = typing.TypedDict('Label2meshParameters', {
-    "__STYXTYPE__": typing.Literal["label2mesh"],
+    "@type": typing.NotRequired[typing.Literal["mrtrix/label2mesh"]],
+    "blocky": bool,
+    "info": bool,
+    "quiet": bool,
+    "debug": bool,
+    "force": bool,
+    "nthreads": typing.NotRequired[int | None],
+    "config": typing.NotRequired[list[Label2meshConfigParameters] | None],
+    "help": bool,
+    "version": bool,
+    "nodes_in": InputPathType,
+    "mesh_out": str,
+})
+Label2meshParametersTagged = typing.TypedDict('Label2meshParametersTagged', {
+    "@type": typing.Literal["mrtrix/label2mesh"],
     "blocky": bool,
     "info": bool,
     "quiet": bool,
@@ -34,45 +53,12 @@ Label2meshParameters = typing.TypedDict('Label2meshParameters', {
     "nodes_in": InputPathType,
     "mesh_out": str,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "label2mesh": label2mesh_cargs,
-        "config": label2mesh_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 {
-        "label2mesh": label2mesh_outputs,
-    }.get(t)
 
 
 def label2mesh_config_params(
     key: str,
     value: str,
-) -> Label2meshConfigParameters:
+) -> Label2meshConfigParametersTagged:
     """
     Build parameters.
     
@@ -83,7 +69,7 @@ def label2mesh_config_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "config",
+        "@type": "config",
         "key": key,
         "value": value,
     }
@@ -105,14 +91,14 @@ def label2mesh_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 Label2meshOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `label2mesh(...)`.
+    Output object returned when calling `Label2meshParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -132,7 +118,7 @@ def label2mesh_params(
     config: list[Label2meshConfigParameters] | None = None,
     help_: bool = False,
     version: bool = False,
-) -> Label2meshParameters:
+) -> Label2meshParametersTagged:
     """
     Build parameters.
     
@@ -157,7 +143,7 @@ def label2mesh_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "label2mesh",
+        "@type": "mrtrix/label2mesh",
         "blocky": blocky,
         "info": info,
         "quiet": quiet,
@@ -190,29 +176,29 @@ def label2mesh_cargs(
     """
     cargs = []
     cargs.append("label2mesh")
-    if params.get("blocky"):
+    if params.get("blocky", False):
         cargs.append("-blocky")
-    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 [label2mesh_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.append(execution.input_file(params.get("nodes_in")))
-    cargs.append(params.get("mesh_out"))
+    cargs.append(execution.input_file(params.get("nodes_in", None)))
+    cargs.append(params.get("mesh_out", None))
     return cargs
 
 
@@ -231,16 +217,18 @@ def label2mesh_outputs(
     """
     ret = Label2meshOutputs(
         root=execution.output_file("."),
-        mesh_out=execution.output_file(params.get("mesh_out")),
+        mesh_out=execution.output_file(params.get("mesh_out", None)),
     )
     return ret
 
 
 def label2mesh_execute(
     params: Label2meshParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> Label2meshOutputs:
     """
+    label2mesh
+    
     Generate meshes from a label image.
     
     
@@ -255,10 +243,12 @@ def label2mesh_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `Label2meshOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(LABEL2MESH_METADATA)
     params = execution.params(params)
     cargs = label2mesh_cargs(params, execution)
     ret = label2mesh_outputs(params, execution)
@@ -281,6 +271,8 @@ def label2mesh(
     runner: Runner | None = None,
 ) -> Label2meshOutputs:
     """
+    label2mesh
+    
     Generate meshes from a label image.
     
     
@@ -314,8 +306,6 @@ def label2mesh(
     Returns:
         NamedTuple of outputs (described in `Label2meshOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(LABEL2MESH_METADATA)
     params = label2mesh_params(
         blocky=blocky,
         info=info,
@@ -329,15 +319,14 @@ def label2mesh(
         nodes_in=nodes_in,
         mesh_out=mesh_out,
     )
-    return label2mesh_execute(params, execution)
+    return label2mesh_execute(params, runner)
 
 
 __all__ = [
     "LABEL2MESH_METADATA",
-    "Label2meshConfigParameters",
     "Label2meshOutputs",
-    "Label2meshParameters",
     "label2mesh",
     "label2mesh_config_params",
+    "label2mesh_execute",
     "label2mesh_params",
 ]

niwrap_mrtrix/mrtrix/labelconvert.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 LABELCONVERT_METADATA = Metadata(
-    id="4568f3761d8faacbe019ad83a8f076b8f125f859.boutiques",
+    id="5aa09ff9ec4b21693b7d07b8329c2bc641669b7c.boutiques",
     name="labelconvert",
     package="mrtrix",
     container_image_tag="mrtrix3/mrtrix3:3.0.4",
@@ -14,14 +14,35 @@ LABELCONVERT_METADATA = Metadata(
 
 
 LabelconvertConfigParameters = typing.TypedDict('LabelconvertConfigParameters', {
-    "__STYXTYPE__": typing.Literal["config"],
+    "@type": typing.NotRequired[typing.Literal["config"]],
+    "key": str,
+    "value": str,
+})
+LabelconvertConfigParametersTagged = typing.TypedDict('LabelconvertConfigParametersTagged', {
+    "@type": typing.Literal["config"],
     "key": str,
     "value": str,
 })
 
 
 LabelconvertParameters = typing.TypedDict('LabelconvertParameters', {
-    "__STYXTYPE__": typing.Literal["labelconvert"],
+    "@type": typing.NotRequired[typing.Literal["mrtrix/labelconvert"]],
+    "spine": typing.NotRequired[InputPathType | None],
+    "info": bool,
+    "quiet": bool,
+    "debug": bool,
+    "force": bool,
+    "nthreads": typing.NotRequired[int | None],
+    "config": typing.NotRequired[list[LabelconvertConfigParameters] | None],
+    "help": bool,
+    "version": bool,
+    "path_in": InputPathType,
+    "lut_in": InputPathType,
+    "lut_out": InputPathType,
+    "image_out": str,
+})
+LabelconvertParametersTagged = typing.TypedDict('LabelconvertParametersTagged', {
+    "@type": typing.Literal["mrtrix/labelconvert"],
     "spine": typing.NotRequired[InputPathType | None],
     "info": bool,
     "quiet": bool,
@@ -36,45 +57,12 @@ LabelconvertParameters = typing.TypedDict('LabelconvertParameters', {
     "lut_out": InputPathType,
     "image_out": str,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "labelconvert": labelconvert_cargs,
-        "config": labelconvert_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 {
-        "labelconvert": labelconvert_outputs,
-    }.get(t)
 
 
 def labelconvert_config_params(
     key: str,
     value: str,
-) -> LabelconvertConfigParameters:
+) -> LabelconvertConfigParametersTagged:
     """
     Build parameters.
     
@@ -85,7 +73,7 @@ def labelconvert_config_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "config",
+        "@type": "config",
         "key": key,
         "value": value,
     }
@@ -107,14 +95,14 @@ def labelconvert_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 LabelconvertOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `labelconvert(...)`.
+    Output object returned when calling `LabelconvertParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -136,7 +124,7 @@ def labelconvert_params(
     config: list[LabelconvertConfigParameters] | None = None,
     help_: bool = False,
     version: bool = False,
-) -> LabelconvertParameters:
+) -> LabelconvertParametersTagged:
     """
     Build parameters.
     
@@ -164,7 +152,7 @@ def labelconvert_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "labelconvert",
+        "@type": "mrtrix/labelconvert",
         "info": info,
         "quiet": quiet,
         "debug": debug,
@@ -200,34 +188,34 @@ def labelconvert_cargs(
     """
     cargs = []
     cargs.append("labelconvert")
-    if params.get("spine") is not None:
+    if params.get("spine", None) is not None:
         cargs.extend([
             "-spine",
-            execution.input_file(params.get("spine"))
+            execution.input_file(params.get("spine", 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 [labelconvert_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.append(execution.input_file(params.get("path_in")))
-    cargs.append(execution.input_file(params.get("lut_in")))
-    cargs.append(execution.input_file(params.get("lut_out")))
-    cargs.append(params.get("image_out"))
+    cargs.append(execution.input_file(params.get("path_in", None)))
+    cargs.append(execution.input_file(params.get("lut_in", None)))
+    cargs.append(execution.input_file(params.get("lut_out", None)))
+    cargs.append(params.get("image_out", None))
     return cargs
 
 
@@ -246,16 +234,18 @@ def labelconvert_outputs(
     """
     ret = LabelconvertOutputs(
         root=execution.output_file("."),
-        image_out=execution.output_file(params.get("image_out")),
+        image_out=execution.output_file(params.get("image_out", None)),
     )
     return ret
 
 
 def labelconvert_execute(
     params: LabelconvertParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> LabelconvertOutputs:
     """
+    labelconvert
+    
     Convert a connectome node image from one lookup table to another.
     
     Typical usage is to convert a parcellation image provided by some other
@@ -276,10 +266,12 @@ def labelconvert_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `LabelconvertOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(LABELCONVERT_METADATA)
     params = execution.params(params)
     cargs = labelconvert_cargs(params, execution)
     ret = labelconvert_outputs(params, execution)
@@ -304,6 +296,8 @@ def labelconvert(
     runner: Runner | None = None,
 ) -> LabelconvertOutputs:
     """
+    labelconvert
+    
     Convert a connectome node image from one lookup table to another.
     
     Typical usage is to convert a parcellation image provided by some other
@@ -346,8 +340,6 @@ def labelconvert(
     Returns:
         NamedTuple of outputs (described in `LabelconvertOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(LABELCONVERT_METADATA)
     params = labelconvert_params(
         spine=spine,
         info=info,
@@ -363,15 +355,14 @@ def labelconvert(
         lut_out=lut_out,
         image_out=image_out,
     )
-    return labelconvert_execute(params, execution)
+    return labelconvert_execute(params, runner)
 
 
 __all__ = [
     "LABELCONVERT_METADATA",
-    "LabelconvertConfigParameters",
     "LabelconvertOutputs",
-    "LabelconvertParameters",
     "labelconvert",
     "labelconvert_config_params",
+    "labelconvert_execute",
     "labelconvert_params",
 ]