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

niwrap_afni/afni/v_3d_compare_affine.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V_3D_COMPARE_AFFINE_METADATA = Metadata(
-    id="d33e1943950db976fb3b7c9bb263a88cae31d503.boutiques",
+    id="04d001195182e6193557b2d3270db9ca8f081ce9.boutiques",
     name="3dCompareAffine",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,48 +14,22 @@ V_3D_COMPARE_AFFINE_METADATA = Metadata(
 
 
 V3dCompareAffineParameters = typing.TypedDict('V3dCompareAffineParameters', {
-    "__STYXTYPE__": typing.Literal["3dCompareAffine"],
+    "@type": typing.NotRequired[typing.Literal["afni/3dCompareAffine"]],
+    "mask": typing.NotRequired[str | None],
+    "dset": typing.NotRequired[InputPathType | None],
+    "affine": typing.NotRequired[list[str] | None],
+})
+V3dCompareAffineParametersTagged = typing.TypedDict('V3dCompareAffineParametersTagged', {
+    "@type": typing.Literal["afni/3dCompareAffine"],
     "mask": typing.NotRequired[str | None],
     "dset": typing.NotRequired[InputPathType | None],
     "affine": typing.NotRequired[list[str] | None],
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "3dCompareAffine": v_3d_compare_affine_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 {
-        "3dCompareAffine": v_3d_compare_affine_outputs,
-    }.get(t)
 
 
 class V3dCompareAffineOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v_3d_compare_affine(...)`.
+    Output object returned when calling `V3dCompareAffineParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -67,7 +41,7 @@ def v_3d_compare_affine_params(
     mask: str | None = None,
     dset: InputPathType | None = None,
     affine: list[str] | None = None,
-) -> V3dCompareAffineParameters:
+) -> V3dCompareAffineParametersTagged:
     """
     Build parameters.
     
@@ -82,7 +56,7 @@ def v_3d_compare_affine_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "3dCompareAffine",
+        "@type": "afni/3dCompareAffine",
     }
     if mask is not None:
         params["mask"] = mask
@@ -108,20 +82,20 @@ def v_3d_compare_affine_cargs(
     """
     cargs = []
     cargs.append("3dCompareAffine")
-    if params.get("mask") is not None:
+    if params.get("mask", None) is not None:
         cargs.extend([
             "-mask",
-            params.get("mask")
+            params.get("mask", None)
         ])
-    if params.get("dset") is not None:
+    if params.get("dset", None) is not None:
         cargs.extend([
             "-dset",
-            execution.input_file(params.get("dset"))
+            execution.input_file(params.get("dset", None))
         ])
-    if params.get("affine") is not None:
+    if params.get("affine", None) is not None:
         cargs.extend([
             "-affine",
-            *params.get("affine")
+            *params.get("affine", None)
         ])
     return cargs
 
@@ -148,11 +122,13 @@ def v_3d_compare_affine_outputs(
 
 def v_3d_compare_affine_execute(
     params: V3dCompareAffineParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> V3dCompareAffineOutputs:
     """
-    Compares two (or more) affine spatial transformations on a dataset and outputs
-    measurements of their differences in spatial displacements.
+    3dCompareAffine
+    
+    Compares two (or more) affine spatial transformations on a dataset and
+    outputs measurements of their differences in spatial displacements.
     
     Author: AFNI Developers
     
@@ -160,10 +136,12 @@ def v_3d_compare_affine_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `V3dCompareAffineOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V_3D_COMPARE_AFFINE_METADATA)
     params = execution.params(params)
     cargs = v_3d_compare_affine_cargs(params, execution)
     ret = v_3d_compare_affine_outputs(params, execution)
@@ -178,8 +156,10 @@ def v_3d_compare_affine(
     runner: Runner | None = None,
 ) -> V3dCompareAffineOutputs:
     """
-    Compares two (or more) affine spatial transformations on a dataset and outputs
-    measurements of their differences in spatial displacements.
+    3dCompareAffine
+    
+    Compares two (or more) affine spatial transformations on a dataset and
+    outputs measurements of their differences in spatial displacements.
     
     Author: AFNI Developers
     
@@ -196,20 +176,18 @@ def v_3d_compare_affine(
     Returns:
         NamedTuple of outputs (described in `V3dCompareAffineOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V_3D_COMPARE_AFFINE_METADATA)
     params = v_3d_compare_affine_params(
         mask=mask,
         dset=dset,
         affine=affine,
     )
-    return v_3d_compare_affine_execute(params, execution)
+    return v_3d_compare_affine_execute(params, runner)
 
 
 __all__ = [
     "V3dCompareAffineOutputs",
-    "V3dCompareAffineParameters",
     "V_3D_COMPARE_AFFINE_METADATA",
     "v_3d_compare_affine",
+    "v_3d_compare_affine_execute",
     "v_3d_compare_affine_params",
 ]

niwrap_afni/afni/v_3d_conformist.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V_3D_CONFORMIST_METADATA = Metadata(
-    id="63b3754b3ba2db8a7c79b06afeb0810bdb32d0bc.boutiques",
+    id="5364044bdb15b4b167c48ea32e2e56b54471409d.boutiques",
     name="3dConformist",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,46 +14,18 @@ V_3D_CONFORMIST_METADATA = Metadata(
 
 
 V3dConformistParameters = typing.TypedDict('V3dConformistParameters', {
-    "__STYXTYPE__": typing.Literal["3dConformist"],
+    "@type": typing.NotRequired[typing.Literal["afni/3dConformist"]],
+    "input_files": list[InputPathType],
+})
+V3dConformistParametersTagged = typing.TypedDict('V3dConformistParametersTagged', {
+    "@type": typing.Literal["afni/3dConformist"],
     "input_files": list[InputPathType],
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "3dConformist": v_3d_conformist_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 {
-        "3dConformist": v_3d_conformist_outputs,
-    }.get(t)
 
 
 class V3dConformistOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v_3d_conformist(...)`.
+    Output object returned when calling `V3dConformistParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -63,7 +35,7 @@ class V3dConformistOutputs(typing.NamedTuple):
 
 def v_3d_conformist_params(
     input_files: list[InputPathType],
-) -> V3dConformistParameters:
+) -> V3dConformistParametersTagged:
     """
     Build parameters.
     
@@ -73,7 +45,7 @@ def v_3d_conformist_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "3dConformist",
+        "@type": "afni/3dConformist",
         "input_files": input_files,
     }
     return params
@@ -94,7 +66,7 @@ def v_3d_conformist_cargs(
     """
     cargs = []
     cargs.append("3dConformist")
-    cargs.extend([execution.input_file(f) for f in params.get("input_files")])
+    cargs.extend([execution.input_file(f) for f in params.get("input_files", None)])
     return cargs
 
 
@@ -120,10 +92,13 @@ def v_3d_conformist_outputs(
 
 def v_3d_conformist_execute(
     params: V3dConformistParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> V3dConformistOutputs:
     """
-    Program to conform a collection of datasets to the same size by zero padding.
+    3dConformist
+    
+    Program to conform a collection of datasets to the same size by zero
+    padding.
     
     Author: AFNI Developers
     
@@ -131,10 +106,12 @@ def v_3d_conformist_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `V3dConformistOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V_3D_CONFORMIST_METADATA)
     params = execution.params(params)
     cargs = v_3d_conformist_cargs(params, execution)
     ret = v_3d_conformist_outputs(params, execution)
@@ -147,7 +124,10 @@ def v_3d_conformist(
     runner: Runner | None = None,
 ) -> V3dConformistOutputs:
     """
-    Program to conform a collection of datasets to the same size by zero padding.
+    3dConformist
+    
+    Program to conform a collection of datasets to the same size by zero
+    padding.
     
     Author: AFNI Developers
     
@@ -159,18 +139,16 @@ def v_3d_conformist(
     Returns:
         NamedTuple of outputs (described in `V3dConformistOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V_3D_CONFORMIST_METADATA)
     params = v_3d_conformist_params(
         input_files=input_files,
     )
-    return v_3d_conformist_execute(params, execution)
+    return v_3d_conformist_execute(params, runner)
 
 
 __all__ = [
     "V3dConformistOutputs",
-    "V3dConformistParameters",
     "V_3D_CONFORMIST_METADATA",
     "v_3d_conformist",
+    "v_3d_conformist_execute",
     "v_3d_conformist_params",
 ]

niwrap_afni/afni/v_3d_convolve.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V_3D_CONVOLVE_METADATA = Metadata(
-    id="a0c61b357c0b8968a59079d164442d2ca0b8cb8d.boutiques",
+    id="8f3103e3d9bb6441f1e9c0b890b87c89f981bcc0.boutiques",
     name="3dConvolve",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,48 +14,22 @@ V_3D_CONVOLVE_METADATA = Metadata(
 
 
 V3dConvolveParameters = typing.TypedDict('V3dConvolveParameters', {
-    "__STYXTYPE__": typing.Literal["3dConvolve"],
+    "@type": typing.NotRequired[typing.Literal["afni/3dConvolve"]],
+    "infile": InputPathType,
+    "outfile": str,
+    "options": typing.NotRequired[str | None],
+})
+V3dConvolveParametersTagged = typing.TypedDict('V3dConvolveParametersTagged', {
+    "@type": typing.Literal["afni/3dConvolve"],
     "infile": InputPathType,
     "outfile": str,
     "options": typing.NotRequired[str | None],
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "3dConvolve": v_3d_convolve_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 {
-        "3dConvolve": v_3d_convolve_outputs,
-    }.get(t)
 
 
 class V3dConvolveOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v_3d_convolve(...)`.
+    Output object returned when calling `V3dConvolveParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -67,7 +41,7 @@ def v_3d_convolve_params(
     infile: InputPathType,
     outfile: str,
     options: str | None = None,
-) -> V3dConvolveParameters:
+) -> V3dConvolveParametersTagged:
     """
     Build parameters.
     
@@ -79,7 +53,7 @@ def v_3d_convolve_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "3dConvolve",
+        "@type": "afni/3dConvolve",
         "infile": infile,
         "outfile": outfile,
     }
@@ -103,12 +77,12 @@ def v_3d_convolve_cargs(
     """
     cargs = []
     cargs.append("3dConvolve")
-    cargs.append(execution.input_file(params.get("infile")))
-    cargs.append(params.get("outfile"))
-    if params.get("options") is not None:
+    cargs.append(execution.input_file(params.get("infile", None)))
+    cargs.append(params.get("outfile", None))
+    if params.get("options", None) is not None:
         cargs.extend([
             "-options",
-            params.get("options")
+            params.get("options", None)
         ])
     return cargs
 
@@ -128,16 +102,18 @@ def v_3d_convolve_outputs(
     """
     ret = V3dConvolveOutputs(
         root=execution.output_file("."),
-        outfile=execution.output_file(params.get("outfile")),
+        outfile=execution.output_file(params.get("outfile", None)),
     )
     return ret
 
 
 def v_3d_convolve_execute(
     params: V3dConvolveParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> V3dConvolveOutputs:
     """
+    3dConvolve
+    
     3dConvolve is no longer supported in AFNI.
     
     Author: AFNI Developers
@@ -146,10 +122,12 @@ def v_3d_convolve_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `V3dConvolveOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V_3D_CONVOLVE_METADATA)
     params = execution.params(params)
     cargs = v_3d_convolve_cargs(params, execution)
     ret = v_3d_convolve_outputs(params, execution)
@@ -164,6 +142,8 @@ def v_3d_convolve(
     runner: Runner | None = None,
 ) -> V3dConvolveOutputs:
     """
+    3dConvolve
+    
     3dConvolve is no longer supported in AFNI.
     
     Author: AFNI Developers
@@ -178,20 +158,18 @@ def v_3d_convolve(
     Returns:
         NamedTuple of outputs (described in `V3dConvolveOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V_3D_CONVOLVE_METADATA)
     params = v_3d_convolve_params(
         infile=infile,
         outfile=outfile,
         options=options,
     )
-    return v_3d_convolve_execute(params, execution)
+    return v_3d_convolve_execute(params, runner)
 
 
 __all__ = [
     "V3dConvolveOutputs",
-    "V3dConvolveParameters",
     "V_3D_CONVOLVE_METADATA",
     "v_3d_convolve",
+    "v_3d_convolve_execute",
     "v_3d_convolve_params",
 ]