niwrap-afni 0.5.0__py3-none-any.whl → 0.5.2__py3-none-any.whl

niwrap_afni/afni/rbox.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 RBOX_METADATA = Metadata(
-    id="4f43f8ba19b6a24114997ab42bf7e5c5e5484c74.boutiques",
+    id="9fdf14ab8e16f325f5ea7e753f75ed7953ef61ba.boutiques",
     name="rbox",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -17,8 +17,23 @@ RboxParameters = typing.TypedDict('RboxParameters', {
     "__STYX_TYPE__": typing.Literal["rbox"],
     "number_points": str,
     "dimension": typing.NotRequired[str | None],
-    "integer_coordinates": bool,
+    "unit_cube": bool,
+    "unit_diamond": bool,
+    "spiral": bool,
+    "regular_polygon": bool,
+    "cospherical_points": bool,
+    "simplex_points": bool,
+    "simplex_plus_points": bool,
+    "add_point": typing.NotRequired[list[str] | None],
+    "lens_distribution": typing.NotRequired[str | None],
+    "random_within": bool,
+    "random_disk": typing.NotRequired[str | None],
     "bounding_box": typing.NotRequired[float | None],
+    "homogeneous_coordinates": bool,
+    "remove_command_line": bool,
+    "time_seed": bool,
+    "integer_coordinates": bool,
+    "bounding_box_1": typing.NotRequired[float | None],
     "offset": typing.NotRequired[float | None],
     "user_seed": typing.NotRequired[float | None],
     "mesh_lattice": typing.NotRequired[list[str] | None],
@@ -67,8 +82,23 @@ class RboxOutputs(typing.NamedTuple):
 def rbox_params(
     number_points: str,
     dimension: str | None = None,
-    integer_coordinates: bool = False,
+    unit_cube: bool = False,
+    unit_diamond: bool = False,
+    spiral: bool = False,
+    regular_polygon: bool = False,
+    cospherical_points: bool = False,
+    simplex_points: bool = False,
+    simplex_plus_points: bool = False,
+    add_point: list[str] | None = None,
+    lens_distribution: str | None = None,
+    random_within: bool = False,
+    random_disk: str | None = None,
     bounding_box: float | None = None,
+    homogeneous_coordinates: bool = False,
+    remove_command_line: bool = False,
+    time_seed: bool = False,
+    integer_coordinates: bool = False,
+    bounding_box_1: float | None = None,
     offset: float | None = None,
     user_seed: float | None = None,
     mesh_lattice: list[str] | None = None,
@@ -80,8 +110,28 @@ def rbox_params(
         number_points: Number of random points in cube, lens, spiral, sphere or\
             grid.
         dimension: Dimension (e.g., D3 for 3-d).
-        integer_coordinates: Print integer coordinates, default 'Bn' is 1e+06.
+        unit_cube: Add a unit cube to the output (optional: 'c G2.0' sets size).
+        unit_diamond: Add a unit diamond to the output (optional: 'd G2.0' sets\
+            size).
+        spiral: Generate a regular 3-d spiral.
+        regular_polygon: Generate a regular polygon (optional: 'r s Z1 G0.1'\
+            makes a cone).
+        cospherical_points: Generate cospherical points.
+        simplex_points: Generate random points in simplex, may use 'r' or 'Wn'.
+        simplex_plus_points: Same as 'x', plus simplex.
+        add_point: Add point [n,m,r] first, pads with 0.
+        lens_distribution: Lens distribution of radius n. Also 's', 'r', 'G',\
+            'W'.
+        random_within: Random distribution within 0.1 of the cube's or sphere's\
+            surface.
+        random_disk: Random points in a 0.5 disk projected to a sphere,\
+            optional gap size (e.g., 'Z0.5 s G0.6').
         bounding_box: Bounding box coordinates, default 0.5.
+        homogeneous_coordinates: Output as homogeneous coordinates for cdd.
+        remove_command_line: Remove command line from the first line of output.
+        time_seed: Use time as the random number seed (default is command line).
+        integer_coordinates: Print integer coordinates, default 'Bn' is 1e+06.
+        bounding_box_1: Bounding box coordinates, default 0.5.
         offset: Offset coordinates by n.
         user_seed: Use n as the random number seed.
         mesh_lattice: Lattice (Mesh) rotated by [n,-m,0], [m,n,0], [0,0,r], ...
@@ -91,12 +141,31 @@ def rbox_params(
     params = {
         "__STYXTYPE__": "rbox",
         "number_points": number_points,
+        "unit_cube": unit_cube,
+        "unit_diamond": unit_diamond,
+        "spiral": spiral,
+        "regular_polygon": regular_polygon,
+        "cospherical_points": cospherical_points,
+        "simplex_points": simplex_points,
+        "simplex_plus_points": simplex_plus_points,
+        "random_within": random_within,
+        "homogeneous_coordinates": homogeneous_coordinates,
+        "remove_command_line": remove_command_line,
+        "time_seed": time_seed,
         "integer_coordinates": integer_coordinates,
     }
     if dimension is not None:
         params["dimension"] = dimension
+    if add_point is not None:
+        params["add_point"] = add_point
+    if lens_distribution is not None:
+        params["lens_distribution"] = lens_distribution
+    if random_disk is not None:
+        params["random_disk"] = random_disk
     if bounding_box is not None:
         params["bounding_box"] = bounding_box
+    if bounding_box_1 is not None:
+        params["bounding_box_1"] = bounding_box_1
     if offset is not None:
         params["offset"] = offset
     if user_seed is not None:
@@ -124,13 +193,55 @@ def rbox_cargs(
     cargs.append(params.get("number_points"))
     if params.get("dimension") is not None:
         cargs.append(params.get("dimension"))
-    if params.get("integer_coordinates"):
-        cargs.append("z")
+    if params.get("unit_cube"):
+        cargs.append("c")
+    if params.get("unit_diamond"):
+        cargs.append("d")
+    if params.get("spiral"):
+        cargs.append("l")
+    if params.get("regular_polygon"):
+        cargs.append("r")
+    if params.get("cospherical_points"):
+        cargs.append("s")
+    if params.get("simplex_points"):
+        cargs.append("x")
+    if params.get("simplex_plus_points"):
+        cargs.append("y")
+    if params.get("add_point") is not None:
+        cargs.extend([
+            "P",
+            *params.get("add_point")
+        ])
+    if params.get("lens_distribution") is not None:
+        cargs.extend([
+            "L",
+            params.get("lens_distribution")
+        ])
+    if params.get("random_within"):
+        cargs.append("W")
+    if params.get("random_disk") is not None:
+        cargs.extend([
+            "Z",
+            params.get("random_disk")
+        ])
     if params.get("bounding_box") is not None:
         cargs.extend([
             "B",
             str(params.get("bounding_box"))
         ])
+    if params.get("homogeneous_coordinates"):
+        cargs.append("h")
+    if params.get("remove_command_line"):
+        cargs.append("n")
+    if params.get("time_seed"):
+        cargs.append("t")
+    if params.get("integer_coordinates"):
+        cargs.append("z")
+    if params.get("bounding_box_1") is not None:
+        cargs.extend([
+            "B",
+            str(params.get("bounding_box_1"))
+        ])
     if params.get("offset") is not None:
         cargs.extend([
             "O",
@@ -195,8 +306,23 @@ def rbox_execute(
 def rbox(
     number_points: str,
     dimension: str | None = None,
-    integer_coordinates: bool = False,
+    unit_cube: bool = False,
+    unit_diamond: bool = False,
+    spiral: bool = False,
+    regular_polygon: bool = False,
+    cospherical_points: bool = False,
+    simplex_points: bool = False,
+    simplex_plus_points: bool = False,
+    add_point: list[str] | None = None,
+    lens_distribution: str | None = None,
+    random_within: bool = False,
+    random_disk: str | None = None,
     bounding_box: float | None = None,
+    homogeneous_coordinates: bool = False,
+    remove_command_line: bool = False,
+    time_seed: bool = False,
+    integer_coordinates: bool = False,
+    bounding_box_1: float | None = None,
     offset: float | None = None,
     user_seed: float | None = None,
     mesh_lattice: list[str] | None = None,
@@ -213,8 +339,28 @@ def rbox(
         number_points: Number of random points in cube, lens, spiral, sphere or\
             grid.
         dimension: Dimension (e.g., D3 for 3-d).
-        integer_coordinates: Print integer coordinates, default 'Bn' is 1e+06.
+        unit_cube: Add a unit cube to the output (optional: 'c G2.0' sets size).
+        unit_diamond: Add a unit diamond to the output (optional: 'd G2.0' sets\
+            size).
+        spiral: Generate a regular 3-d spiral.
+        regular_polygon: Generate a regular polygon (optional: 'r s Z1 G0.1'\
+            makes a cone).
+        cospherical_points: Generate cospherical points.
+        simplex_points: Generate random points in simplex, may use 'r' or 'Wn'.
+        simplex_plus_points: Same as 'x', plus simplex.
+        add_point: Add point [n,m,r] first, pads with 0.
+        lens_distribution: Lens distribution of radius n. Also 's', 'r', 'G',\
+            'W'.
+        random_within: Random distribution within 0.1 of the cube's or sphere's\
+            surface.
+        random_disk: Random points in a 0.5 disk projected to a sphere,\
+            optional gap size (e.g., 'Z0.5 s G0.6').
         bounding_box: Bounding box coordinates, default 0.5.
+        homogeneous_coordinates: Output as homogeneous coordinates for cdd.
+        remove_command_line: Remove command line from the first line of output.
+        time_seed: Use time as the random number seed (default is command line).
+        integer_coordinates: Print integer coordinates, default 'Bn' is 1e+06.
+        bounding_box_1: Bounding box coordinates, default 0.5.
         offset: Offset coordinates by n.
         user_seed: Use n as the random number seed.
         mesh_lattice: Lattice (Mesh) rotated by [n,-m,0], [m,n,0], [0,0,r], ...
@@ -227,8 +373,23 @@ def rbox(
     params = rbox_params(
         number_points=number_points,
         dimension=dimension,
-        integer_coordinates=integer_coordinates,
+        unit_cube=unit_cube,
+        unit_diamond=unit_diamond,
+        spiral=spiral,
+        regular_polygon=regular_polygon,
+        cospherical_points=cospherical_points,
+        simplex_points=simplex_points,
+        simplex_plus_points=simplex_plus_points,
+        add_point=add_point,
+        lens_distribution=lens_distribution,
+        random_within=random_within,
+        random_disk=random_disk,
         bounding_box=bounding_box,
+        homogeneous_coordinates=homogeneous_coordinates,
+        remove_command_line=remove_command_line,
+        time_seed=time_seed,
+        integer_coordinates=integer_coordinates,
+        bounding_box_1=bounding_box_1,
         offset=offset,
         user_seed=user_seed,
         mesh_lattice=mesh_lattice,

niwrap_afni/afni/samp_bias.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 SAMP_BIAS_METADATA = Metadata(
-    id="6e470934bf7282b84b4830d0577fb44d56bf39e3.boutiques",
+    id="e1325d010e905394733e9c7b189375c71f01d74b.boutiques",
     name="SampBias",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -21,6 +21,7 @@ SampBiasParameters = typing.TypedDict('SampBiasParameters', {
     "dlimit": typing.NotRequired[float | None],
     "outfile": str,
     "prefix": typing.NotRequired[str | None],
+    "segdo": typing.NotRequired[str | None],
 })
 
 
@@ -75,6 +76,7 @@ def samp_bias_params(
     plimit: float | None = None,
     dlimit: float | None = None,
     prefix: str | None = None,
+    segdo: str | None = None,
 ) -> SampBiasParameters:
     """
     Build parameters.
@@ -86,6 +88,8 @@ def samp_bias_params(
         plimit: Maximum length of path along surface in mm. Default is 50 mm.
         dlimit: Maximum length of euclidean distance in mm. Default is 1000 mm.
         prefix: Output results into a proper surface-based dataset.
+        segdo: Output a displayable object file that contains segments between\
+            paired nodes.
     Returns:
         Parameter dictionary
     """
@@ -101,6 +105,8 @@ def samp_bias_params(
         params["dlimit"] = dlimit
     if prefix is not None:
         params["prefix"] = prefix
+    if segdo is not None:
+        params["segdo"] = segdo
     return params
 
 
@@ -146,6 +152,11 @@ def samp_bias_cargs(
             "-prefix",
             params.get("prefix")
         ])
+    if params.get("segdo") is not None:
+        cargs.extend([
+            "-segdo",
+            params.get("segdo")
+        ])
     return cargs
 
 
@@ -202,6 +213,7 @@ def samp_bias(
     plimit: float | None = None,
     dlimit: float | None = None,
     prefix: str | None = None,
+    segdo: str | None = None,
     runner: Runner | None = None,
 ) -> SampBiasOutputs:
     """
@@ -219,6 +231,8 @@ def samp_bias(
         plimit: Maximum length of path along surface in mm. Default is 50 mm.
         dlimit: Maximum length of euclidean distance in mm. Default is 1000 mm.
         prefix: Output results into a proper surface-based dataset.
+        segdo: Output a displayable object file that contains segments between\
+            paired nodes.
         runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `SampBiasOutputs`).
@@ -232,6 +246,7 @@ def samp_bias(
         dlimit=dlimit,
         outfile=outfile,
         prefix=prefix,
+        segdo=segdo,
     )
     return samp_bias_execute(params, execution)
 

niwrap_afni/afni/sfim.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 SFIM_METADATA = Metadata(
-    id="62032460073e6537145dc05bebbde2400a1cbdbc.boutiques",
+    id="a13eb6a1647edd69950d6fbc3efb98691eeddce5.boutiques",
     name="sfim",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -15,6 +15,7 @@ SFIM_METADATA = Metadata(
 
 SfimParameters = typing.TypedDict('SfimParameters', {
     "__STYX_TYPE__": typing.Literal["sfim"],
+    "input_images": list[InputPathType],
     "sfint_file": typing.NotRequired[str | None],
     "baseline_state": typing.NotRequired[str | None],
     "local_base_option": bool,
@@ -65,6 +66,7 @@ class SfimOutputs(typing.NamedTuple):
 
 
 def sfim_params(
+    input_images: list[InputPathType],
     sfint_file: str | None = None,
     baseline_state: str | None = None,
     local_base_option: bool = False,
@@ -74,6 +76,7 @@ def sfim_params(
     Build parameters.
     
     Args:
+        input_images: Input image files in formats accepted by AFNI.
         sfint_file: Filename which contains the interval definitions. Default\
             is 'sfint'. Example: '3*# 5*rest 4*A 5*rest 4*B 5*rest 4*A 5*rest'.
         baseline_state: Task state name to use as the baseline. Default is\
@@ -89,6 +92,7 @@ def sfim_params(
     """
     params = {
         "__STYXTYPE__": "sfim",
+        "input_images": input_images,
         "local_base_option": local_base_option,
     }
     if sfint_file is not None:
@@ -115,6 +119,7 @@ def sfim_cargs(
     """
     cargs = []
     cargs.append("sfim")
+    cargs.extend([execution.input_file(f) for f in params.get("input_images")])
     if params.get("sfint_file") is not None:
         cargs.extend([
             "-sfint",
@@ -132,7 +137,6 @@ def sfim_cargs(
             "-prefix",
             params.get("output_prefix")
         ])
-    cargs.append("[INPUT_FILES...]")
     return cargs
 
 
@@ -181,6 +185,7 @@ def sfim_execute(
 
 
 def sfim(
+    input_images: list[InputPathType],
     sfint_file: str | None = None,
     baseline_state: str | None = None,
     local_base_option: bool = False,
@@ -195,6 +200,7 @@ def sfim(
     URL: https://afni.nimh.nih.gov/
     
     Args:
+        input_images: Input image files in formats accepted by AFNI.
         sfint_file: Filename which contains the interval definitions. Default\
             is 'sfint'. Example: '3*# 5*rest 4*A 5*rest 4*B 5*rest 4*A 5*rest'.
         baseline_state: Task state name to use as the baseline. Default is\
@@ -212,6 +218,7 @@ def sfim(
     runner = runner or get_global_runner()
     execution = runner.start_execution(SFIM_METADATA)
     params = sfim_params(
+        input_images=input_images,
         sfint_file=sfint_file,
         baseline_state=baseline_state,
         local_base_option=local_base_option,

niwrap_afni/afni/stimband.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 STIMBAND_METADATA = Metadata(
-    id="464e80031a1b4a970344b72621a7160776336ad8.boutiques",
+    id="ca5a92d5ac7d886044df23850ca6ef4054823866.boutiques",
     name="stimband",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -16,6 +16,8 @@ STIMBAND_METADATA = Metadata(
 StimbandParameters = typing.TypedDict('StimbandParameters', {
     "__STYX_TYPE__": typing.Literal["stimband"],
     "verbose_flag": bool,
+    "matrixfiles": list[InputPathType],
+    "additional_matrixfiles": typing.NotRequired[list[InputPathType] | None],
     "min_freq": typing.NotRequired[float | None],
     "min_bwidth": typing.NotRequired[float | None],
     "min_pow": typing.NotRequired[float | None],
@@ -66,7 +68,9 @@ class StimbandOutputs(typing.NamedTuple):
 
 
 def stimband_params(
+    matrixfiles: list[InputPathType],
     verbose_flag: bool = False,
+    additional_matrixfiles: list[InputPathType] | None = None,
     min_freq: float | None = None,
     min_bwidth: float | None = None,
     min_pow: float | None = None,
@@ -75,8 +79,10 @@ def stimband_params(
     Build parameters.
     
     Args:
+        matrixfiles: Path to matrix files.
         verbose_flag: Print the power band for each individual stimulus column\
             from each matrix.
+        additional_matrixfiles: Another way to read 1 or more matrix files.
         min_freq: Set the minimum frequency output for the band. Default value\
             is 0.01.
         min_bwidth: Set the minimum bandwidth output (top frequency minus\
@@ -89,7 +95,10 @@ def stimband_params(
     params = {
         "__STYXTYPE__": "stimband",
         "verbose_flag": verbose_flag,
+        "matrixfiles": matrixfiles,
     }
+    if additional_matrixfiles is not None:
+        params["additional_matrixfiles"] = additional_matrixfiles
     if min_freq is not None:
         params["min_freq"] = min_freq
     if min_bwidth is not None:
@@ -116,8 +125,12 @@ def stimband_cargs(
     cargs.append("stimband")
     if params.get("verbose_flag"):
         cargs.append("-verb")
-    cargs.append("[MATRIXFILES...]")
-    cargs.append("[ADDITIONAL_MATRIXFILES...]")
+    cargs.extend([execution.input_file(f) for f in params.get("matrixfiles")])
+    if params.get("additional_matrixfiles") is not None:
+        cargs.extend([
+            "-matrix",
+            *[execution.input_file(f) for f in params.get("additional_matrixfiles")]
+        ])
     if params.get("min_freq") is not None:
         cargs.extend([
             "-min_freq",
@@ -182,7 +195,9 @@ def stimband_execute(
 
 
 def stimband(
+    matrixfiles: list[InputPathType],
     verbose_flag: bool = False,
+    additional_matrixfiles: list[InputPathType] | None = None,
     min_freq: float | None = None,
     min_bwidth: float | None = None,
     min_pow: float | None = None,
@@ -197,8 +212,10 @@ def stimband(
     URL: https://afni.nimh.nih.gov/
     
     Args:
+        matrixfiles: Path to matrix files.
         verbose_flag: Print the power band for each individual stimulus column\
             from each matrix.
+        additional_matrixfiles: Another way to read 1 or more matrix files.
         min_freq: Set the minimum frequency output for the band. Default value\
             is 0.01.
         min_bwidth: Set the minimum bandwidth output (top frequency minus\
@@ -213,6 +230,8 @@ def stimband(
     execution = runner.start_execution(STIMBAND_METADATA)
     params = stimband_params(
         verbose_flag=verbose_flag,
+        matrixfiles=matrixfiles,
+        additional_matrixfiles=additional_matrixfiles,
         min_freq=min_freq,
         min_bwidth=min_bwidth,
         min_pow=min_pow,

niwrap_afni/afni/surf_dist.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 SURF_DIST_METADATA = Metadata(
-    id="4b7fc8f067afc394968ebdfef5be6b16641eee5b.boutiques",
+    id="8b5c7176c66dac8d05149bdf650ac16471da45a7.boutiques",
     name="SurfDist",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -18,7 +18,11 @@ SurfDistParameters = typing.TypedDict('SurfDistParameters', {
     "surface": InputPathType,
     "nodepairs": InputPathType,
     "node_path_do": typing.NotRequired[str | None],
+    "euclidean": bool,
+    "euclidian": bool,
     "graph": bool,
+    "from_node": typing.NotRequired[str | None],
+    "to_nodes": typing.NotRequired[InputPathType | None],
 })
 
 
@@ -68,7 +72,11 @@ def surf_dist_params(
     surface: InputPathType,
     nodepairs: InputPathType,
     node_path_do: str | None = None,
+    euclidean: bool = False,
+    euclidian: bool = False,
     graph: bool = False,
+    from_node: str | None = None,
+    to_nodes: InputPathType | None = None,
 ) -> SurfDistParameters:
     """
     Build parameters.
@@ -78,7 +86,12 @@ def surf_dist_params(
         nodepairs: Specify node pairs for distance computation.
         node_path_do: Output the shortest path between each node pair as a SUMA\
             Displayable object.
+        euclidean: Calculate Euclidean distance, rather than graph distance.
+        euclidian: Synonym for '-Euclidean'.
         graph: Calculate distance along the mesh (default).
+        from_node: Specify one starting node for pair calculation.
+        to_nodes: Specify nodes used for pair calculation when using\
+            -from_node.
     Returns:
         Parameter dictionary
     """
@@ -86,10 +99,16 @@ def surf_dist_params(
         "__STYXTYPE__": "SurfDist",
         "surface": surface,
         "nodepairs": nodepairs,
+        "euclidean": euclidean,
+        "euclidian": euclidian,
         "graph": graph,
     }
     if node_path_do is not None:
         params["node_path_do"] = node_path_do
+    if from_node is not None:
+        params["from_node"] = from_node
+    if to_nodes is not None:
+        params["to_nodes"] = to_nodes
     return params
 
 
@@ -115,8 +134,22 @@ def surf_dist_cargs(
             "-node_path_do",
             params.get("node_path_do")
         ])
+    if params.get("euclidean"):
+        cargs.append("-Euclidean")
+    if params.get("euclidian"):
+        cargs.append("-Euclidian")
     if params.get("graph"):
         cargs.append("-graph")
+    if params.get("from_node") is not None:
+        cargs.extend([
+            "-from_node",
+            params.get("from_node")
+        ])
+    if params.get("to_nodes") is not None:
+        cargs.extend([
+            "-input",
+            execution.input_file(params.get("to_nodes"))
+        ])
     return cargs
 
 
@@ -168,7 +201,11 @@ def surf_dist(
     surface: InputPathType,
     nodepairs: InputPathType,
     node_path_do: str | None = None,
+    euclidean: bool = False,
+    euclidian: bool = False,
     graph: bool = False,
+    from_node: str | None = None,
+    to_nodes: InputPathType | None = None,
     runner: Runner | None = None,
 ) -> SurfDistOutputs:
     """
@@ -183,7 +220,12 @@ def surf_dist(
         nodepairs: Specify node pairs for distance computation.
         node_path_do: Output the shortest path between each node pair as a SUMA\
             Displayable object.
+        euclidean: Calculate Euclidean distance, rather than graph distance.
+        euclidian: Synonym for '-Euclidean'.
         graph: Calculate distance along the mesh (default).
+        from_node: Specify one starting node for pair calculation.
+        to_nodes: Specify nodes used for pair calculation when using\
+            -from_node.
         runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `SurfDistOutputs`).
@@ -194,7 +236,11 @@ def surf_dist(
         surface=surface,
         nodepairs=nodepairs,
         node_path_do=node_path_do,
+        euclidean=euclidean,
+        euclidian=euclidian,
         graph=graph,
+        from_node=from_node,
+        to_nodes=to_nodes,
     )
     return surf_dist_execute(params, execution)
 

niwrap_afni/afni/surf_fwhm.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 SURF_FWHM_METADATA = Metadata(
-    id="e55aebb6889c141305f83d758c57177bec4ec628.boutiques",
+    id="c0c295cfa2772a4d6c7970693902b2233ab45c11.boutiques",
     name="SurfFWHM",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -219,10 +219,6 @@ def surf_fwhm_cargs(
         cargs.append("-examples")
     if params.get("slice"):
         cargs.append("-slice")
-    cargs.append("[TALK_SUMA_OPTIONS]")
-    cargs.append("[NIML_OPTIONS]")
-    cargs.append("[DEBUG_OPTIONS]")
-    cargs.append("[HELP_OPTIONS]")
     return cargs