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

niwrap_afni/afni/v_3d_kruskal_wallis.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V_3D_KRUSKAL_WALLIS_METADATA = Metadata(
-    id="317079b0dac4061070175eb508c808dec48b1852.boutiques",
+    id="c4d588d98c846668cc79de9a1c61e26919317883.boutiques",
     name="3dKruskalWallis",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,50 +14,26 @@ V_3D_KRUSKAL_WALLIS_METADATA = Metadata(
 
 
 V3dKruskalWallisParameters = typing.TypedDict('V3dKruskalWallisParameters', {
-    "__STYXTYPE__": typing.Literal["3dKruskalWallis"],
+    "@type": typing.NotRequired[typing.Literal["afni/3dKruskalWallis"]],
+    "levels": int,
+    "datasets": list[str],
+    "workmem": typing.NotRequired[int | None],
+    "voxel": typing.NotRequired[int | None],
+    "output": str,
+})
+V3dKruskalWallisParametersTagged = typing.TypedDict('V3dKruskalWallisParametersTagged', {
+    "@type": typing.Literal["afni/3dKruskalWallis"],
     "levels": int,
     "datasets": list[str],
     "workmem": typing.NotRequired[int | None],
     "voxel": typing.NotRequired[int | None],
     "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 {
-        "3dKruskalWallis": v_3d_kruskal_wallis_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 {
-        "3dKruskalWallis": v_3d_kruskal_wallis_outputs,
-    }.get(t)
 
 
 class V3dKruskalWallisOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v_3d_kruskal_wallis(...)`.
+    Output object returned when calling `V3dKruskalWallisParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -71,7 +47,7 @@ def v_3d_kruskal_wallis_params(
     output: str,
     workmem: int | None = None,
     voxel: int | None = None,
-) -> V3dKruskalWallisParameters:
+) -> V3dKruskalWallisParametersTagged:
     """
     Build parameters.
     
@@ -86,7 +62,7 @@ def v_3d_kruskal_wallis_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "3dKruskalWallis",
+        "@type": "afni/3dKruskalWallis",
         "levels": levels,
         "datasets": datasets,
         "output": output,
@@ -115,25 +91,25 @@ def v_3d_kruskal_wallis_cargs(
     cargs.append("3dKruskalWallis")
     cargs.extend([
         "-levels",
-        str(params.get("levels"))
+        str(params.get("levels", None))
     ])
     cargs.extend([
         "-dset",
-        *params.get("datasets")
+        *params.get("datasets", None)
     ])
-    if params.get("workmem") is not None:
+    if params.get("workmem", None) is not None:
         cargs.extend([
             "-workmem",
-            str(params.get("workmem"))
+            str(params.get("workmem", None))
         ])
-    if params.get("voxel") is not None:
+    if params.get("voxel", None) is not None:
         cargs.extend([
             "-voxel",
-            str(params.get("voxel"))
+            str(params.get("voxel", None))
         ])
     cargs.extend([
         "-out",
-        params.get("output")
+        params.get("output", None)
     ])
     return cargs
 
@@ -153,16 +129,18 @@ def v_3d_kruskal_wallis_outputs(
     """
     ret = V3dKruskalWallisOutputs(
         root=execution.output_file("."),
-        outfile_prefix=execution.output_file(params.get("output") + "+tlrc"),
+        outfile_prefix=execution.output_file(params.get("output", None) + "+tlrc"),
     )
     return ret
 
 
 def v_3d_kruskal_wallis_execute(
     params: V3dKruskalWallisParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> V3dKruskalWallisOutputs:
     """
+    3dKruskalWallis
+    
     This program performs nonparametric Kruskal-Wallis test for comparison of
     multiple treatments.
     
@@ -172,10 +150,12 @@ def v_3d_kruskal_wallis_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `V3dKruskalWallisOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V_3D_KRUSKAL_WALLIS_METADATA)
     params = execution.params(params)
     cargs = v_3d_kruskal_wallis_cargs(params, execution)
     ret = v_3d_kruskal_wallis_outputs(params, execution)
@@ -192,6 +172,8 @@ def v_3d_kruskal_wallis(
     runner: Runner | None = None,
 ) -> V3dKruskalWallisOutputs:
     """
+    3dKruskalWallis
+    
     This program performs nonparametric Kruskal-Wallis test for comparison of
     multiple treatments.
     
@@ -210,8 +192,6 @@ def v_3d_kruskal_wallis(
     Returns:
         NamedTuple of outputs (described in `V3dKruskalWallisOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V_3D_KRUSKAL_WALLIS_METADATA)
     params = v_3d_kruskal_wallis_params(
         levels=levels,
         datasets=datasets,
@@ -219,13 +199,13 @@ def v_3d_kruskal_wallis(
         voxel=voxel,
         output=output,
     )
-    return v_3d_kruskal_wallis_execute(params, execution)
+    return v_3d_kruskal_wallis_execute(params, runner)
 
 
 __all__ = [
     "V3dKruskalWallisOutputs",
-    "V3dKruskalWallisParameters",
     "V_3D_KRUSKAL_WALLIS_METADATA",
     "v_3d_kruskal_wallis",
+    "v_3d_kruskal_wallis_execute",
     "v_3d_kruskal_wallis_params",
 ]

niwrap_afni/afni/v_3d_lfcd.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V_3D_LFCD_METADATA = Metadata(
-    id="87de0d819215973cf284e8b6a6ca038b54f23229.boutiques",
+    id="63ec56fb7b2871e0b3c1dee94db48cc2f56d2b7b.boutiques",
     name="3dLFCD",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,7 +14,19 @@ V_3D_LFCD_METADATA = Metadata(
 
 
 V3dLfcdParameters = typing.TypedDict('V3dLfcdParameters', {
-    "__STYXTYPE__": typing.Literal["3dLFCD"],
+    "@type": typing.NotRequired[typing.Literal["afni/3dLFCD"]],
+    "in_file": InputPathType,
+    "autoclip": bool,
+    "automask": bool,
+    "mask": typing.NotRequired[InputPathType | None],
+    "num_threads": typing.NotRequired[int | None],
+    "out_file": typing.NotRequired[str | None],
+    "outputtype": typing.NotRequired[typing.Literal["NIFTI", "AFNI", "NIFTI_GZ"] | None],
+    "polort": typing.NotRequired[int | None],
+    "thresh": typing.NotRequired[float | None],
+})
+V3dLfcdParametersTagged = typing.TypedDict('V3dLfcdParametersTagged', {
+    "@type": typing.Literal["afni/3dLFCD"],
     "in_file": InputPathType,
     "autoclip": bool,
     "automask": bool,
@@ -25,43 +37,11 @@ V3dLfcdParameters = typing.TypedDict('V3dLfcdParameters', {
     "polort": typing.NotRequired[int | None],
     "thresh": typing.NotRequired[float | None],
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "3dLFCD": v_3d_lfcd_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 {
-        "3dLFCD": v_3d_lfcd_outputs,
-    }.get(t)
 
 
 class V3dLfcdOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v_3d_lfcd(...)`.
+    Output object returned when calling `V3dLfcdParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -79,7 +59,7 @@ def v_3d_lfcd_params(
     outputtype: typing.Literal["NIFTI", "AFNI", "NIFTI_GZ"] | None = None,
     polort: int | None = None,
     thresh: float | None = None,
-) -> V3dLfcdParameters:
+) -> V3dLfcdParametersTagged:
     """
     Build parameters.
     
@@ -97,7 +77,7 @@ def v_3d_lfcd_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "3dLFCD",
+        "@type": "afni/3dLFCD",
         "in_file": in_file,
         "autoclip": autoclip,
         "automask": automask,
@@ -132,34 +112,34 @@ def v_3d_lfcd_cargs(
     """
     cargs = []
     cargs.append("3dLFCD")
-    cargs.append(execution.input_file(params.get("in_file")))
-    if params.get("autoclip"):
+    cargs.append(execution.input_file(params.get("in_file", None)))
+    if params.get("autoclip", False):
         cargs.append("-autoclip")
-    if params.get("automask"):
+    if params.get("automask", False):
         cargs.append("-automask")
-    if params.get("mask") is not None:
+    if params.get("mask", None) is not None:
         cargs.extend([
             "-mask",
-            execution.input_file(params.get("mask"))
+            execution.input_file(params.get("mask", None))
         ])
-    if params.get("num_threads") is not None:
-        cargs.append(str(params.get("num_threads")))
-    if params.get("out_file") is not None:
+    if params.get("num_threads", None) is not None:
+        cargs.append(str(params.get("num_threads", None)))
+    if params.get("out_file", None) is not None:
         cargs.extend([
             "-prefix",
-            params.get("out_file")
+            params.get("out_file", None)
         ])
-    if params.get("outputtype") is not None:
-        cargs.append(params.get("outputtype"))
-    if params.get("polort") is not None:
+    if params.get("outputtype", None) is not None:
+        cargs.append(params.get("outputtype", None))
+    if params.get("polort", None) is not None:
         cargs.extend([
             "-polort",
-            str(params.get("polort"))
+            str(params.get("polort", None))
         ])
-    if params.get("thresh") is not None:
+    if params.get("thresh", None) is not None:
         cargs.extend([
             "-thresh",
-            str(params.get("thresh"))
+            str(params.get("thresh", None))
         ])
     return cargs
 
@@ -179,18 +159,20 @@ def v_3d_lfcd_outputs(
     """
     ret = V3dLfcdOutputs(
         root=execution.output_file("."),
-        out_file=execution.output_file(pathlib.Path(params.get("in_file")).name + "_afni"),
+        out_file=execution.output_file(pathlib.Path(params.get("in_file", None)).name + "_afni"),
     )
     return ret
 
 
 def v_3d_lfcd_execute(
     params: V3dLfcdParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> V3dLfcdOutputs:
     """
-    Performs degree centrality on a dataset using a given maskfile via the 3dLFCD
-    command.
+    3dLFCD
+    
+    Performs degree centrality on a dataset using a given maskfile via the
+    3dLFCD command.
     
     Author: AFNI Developers
     
@@ -198,10 +180,12 @@ def v_3d_lfcd_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `V3dLfcdOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V_3D_LFCD_METADATA)
     params = execution.params(params)
     cargs = v_3d_lfcd_cargs(params, execution)
     ret = v_3d_lfcd_outputs(params, execution)
@@ -222,8 +206,10 @@ def v_3d_lfcd(
     runner: Runner | None = None,
 ) -> V3dLfcdOutputs:
     """
-    Performs degree centrality on a dataset using a given maskfile via the 3dLFCD
-    command.
+    3dLFCD
+    
+    Performs degree centrality on a dataset using a given maskfile via the
+    3dLFCD command.
     
     Author: AFNI Developers
     
@@ -243,8 +229,6 @@ def v_3d_lfcd(
     Returns:
         NamedTuple of outputs (described in `V3dLfcdOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V_3D_LFCD_METADATA)
     params = v_3d_lfcd_params(
         in_file=in_file,
         autoclip=autoclip,
@@ -256,13 +240,13 @@ def v_3d_lfcd(
         polort=polort,
         thresh=thresh,
     )
-    return v_3d_lfcd_execute(params, execution)
+    return v_3d_lfcd_execute(params, runner)
 
 
 __all__ = [
     "V3dLfcdOutputs",
-    "V3dLfcdParameters",
     "V_3D_LFCD_METADATA",
     "v_3d_lfcd",
+    "v_3d_lfcd_execute",
     "v_3d_lfcd_params",
 ]