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

niwrap_afni/afni/uniq_images.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 UNIQ_IMAGES_METADATA = Metadata(
-    id="c07bc3b4b116658ca0c5dfc0c96a9903033bb6fc.boutiques",
+    id="acfae7c985924ad5290478ad1896665b095375db.boutiques",
     name="uniq_images",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,46 +14,18 @@ UNIQ_IMAGES_METADATA = Metadata(
 
 
 UniqImagesParameters = typing.TypedDict('UniqImagesParameters', {
-    "__STYXTYPE__": typing.Literal["uniq_images"],
+    "@type": typing.NotRequired[typing.Literal["afni/uniq_images"]],
+    "input_files": list[InputPathType],
+})
+UniqImagesParametersTagged = typing.TypedDict('UniqImagesParametersTagged', {
+    "@type": typing.Literal["afni/uniq_images"],
     "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 {
-        "uniq_images": uniq_images_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 {
-        "uniq_images": uniq_images_outputs,
-    }.get(t)
 
 
 class UniqImagesOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `uniq_images(...)`.
+    Output object returned when calling `UniqImagesParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -63,7 +35,7 @@ class UniqImagesOutputs(typing.NamedTuple):
 
 def uniq_images_params(
     input_files: list[InputPathType],
-) -> UniqImagesParameters:
+) -> UniqImagesParametersTagged:
     """
     Build parameters.
     
@@ -73,7 +45,7 @@ def uniq_images_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "uniq_images",
+        "@type": "afni/uniq_images",
         "input_files": input_files,
     }
     return params
@@ -94,7 +66,7 @@ def uniq_images_cargs(
     """
     cargs = []
     cargs.append("uniq_images")
-    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
 
 
@@ -120,12 +92,14 @@ def uniq_images_outputs(
 
 def uniq_images_execute(
     params: UniqImagesParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> UniqImagesOutputs:
     """
-    Simple program to read in a list of image filenames, determine which files have
-    unique images inside, and echo out only a list of the filenames with unique
-    images.
+    uniq_images
+    
+    Simple program to read in a list of image filenames, determine which files
+    have unique images inside, and echo out only a list of the filenames with
+    unique images.
     
     Author: AFNI Developers
     
@@ -133,10 +107,12 @@ def uniq_images_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `UniqImagesOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(UNIQ_IMAGES_METADATA)
     params = execution.params(params)
     cargs = uniq_images_cargs(params, execution)
     ret = uniq_images_outputs(params, execution)
@@ -149,9 +125,11 @@ def uniq_images(
     runner: Runner | None = None,
 ) -> UniqImagesOutputs:
     """
-    Simple program to read in a list of image filenames, determine which files have
-    unique images inside, and echo out only a list of the filenames with unique
-    images.
+    uniq_images
+    
+    Simple program to read in a list of image filenames, determine which files
+    have unique images inside, and echo out only a list of the filenames with
+    unique images.
     
     Author: AFNI Developers
     
@@ -163,18 +141,16 @@ def uniq_images(
     Returns:
         NamedTuple of outputs (described in `UniqImagesOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(UNIQ_IMAGES_METADATA)
     params = uniq_images_params(
         input_files=input_files,
     )
-    return uniq_images_execute(params, execution)
+    return uniq_images_execute(params, runner)
 
 
 __all__ = [
     "UNIQ_IMAGES_METADATA",
     "UniqImagesOutputs",
-    "UniqImagesParameters",
     "uniq_images",
+    "uniq_images_execute",
     "uniq_images_params",
 ]

niwrap_afni/afni/v_1d_apar2mat.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V_1D_APAR2MAT_METADATA = Metadata(
-    id="ca46e845c2aeb2bfc0d1ca66f53ca7adef2d7e64.boutiques",
+    id="a38c141c8e7dcaa9be485e9b5281ec9cbae1bc6c.boutiques",
     name="1dApar2mat",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,7 +14,22 @@ V_1D_APAR2MAT_METADATA = Metadata(
 
 
 V1dApar2matParameters = typing.TypedDict('V1dApar2matParameters', {
-    "__STYXTYPE__": typing.Literal["1dApar2mat"],
+    "@type": typing.NotRequired[typing.Literal["afni/1dApar2mat"]],
+    "x_shift": float,
+    "y_shift": float,
+    "z_shift": float,
+    "z_angle": float,
+    "x_angle": float,
+    "y_angle": float,
+    "x_scale": float,
+    "y_scale": float,
+    "z_scale": float,
+    "y_x_shear": float,
+    "z_x_shear": float,
+    "z_y_shear": float,
+})
+V1dApar2matParametersTagged = typing.TypedDict('V1dApar2matParametersTagged', {
+    "@type": typing.Literal["afni/1dApar2mat"],
     "x_shift": float,
     "y_shift": float,
     "z_shift": float,
@@ -28,42 +43,11 @@ V1dApar2matParameters = typing.TypedDict('V1dApar2matParameters', {
     "z_x_shear": float,
     "z_y_shear": float,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "1dApar2mat": v_1d_apar2mat_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 {
-    }.get(t)
 
 
 class V1dApar2matOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v_1d_apar2mat(...)`.
+    Output object returned when calling `V1dApar2matParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -82,7 +66,7 @@ def v_1d_apar2mat_params(
     y_x_shear: float,
     z_x_shear: float,
     z_y_shear: float,
-) -> V1dApar2matParameters:
+) -> V1dApar2matParametersTagged:
     """
     Build parameters.
     
@@ -103,7 +87,7 @@ def v_1d_apar2mat_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "1dApar2mat",
+        "@type": "afni/1dApar2mat",
         "x_shift": x_shift,
         "y_shift": y_shift,
         "z_shift": z_shift,
@@ -135,18 +119,18 @@ def v_1d_apar2mat_cargs(
     """
     cargs = []
     cargs.append("1dApar2mat")
-    cargs.append(str(params.get("x_shift")))
-    cargs.append(str(params.get("y_shift")))
-    cargs.append(str(params.get("z_shift")))
-    cargs.append(str(params.get("z_angle")))
-    cargs.append(str(params.get("x_angle")))
-    cargs.append(str(params.get("y_angle")))
-    cargs.append(str(params.get("x_scale")))
-    cargs.append(str(params.get("y_scale")))
-    cargs.append(str(params.get("z_scale")))
-    cargs.append(str(params.get("y_x_shear")))
-    cargs.append(str(params.get("z_x_shear")))
-    cargs.append(str(params.get("z_y_shear")))
+    cargs.append(str(params.get("x_shift", None)))
+    cargs.append(str(params.get("y_shift", None)))
+    cargs.append(str(params.get("z_shift", None)))
+    cargs.append(str(params.get("z_angle", None)))
+    cargs.append(str(params.get("x_angle", None)))
+    cargs.append(str(params.get("y_angle", None)))
+    cargs.append(str(params.get("x_scale", None)))
+    cargs.append(str(params.get("y_scale", None)))
+    cargs.append(str(params.get("z_scale", None)))
+    cargs.append(str(params.get("y_x_shear", None)))
+    cargs.append(str(params.get("z_x_shear", None)))
+    cargs.append(str(params.get("z_y_shear", None)))
     return cargs
 
 
@@ -171,9 +155,11 @@ def v_1d_apar2mat_outputs(
 
 def v_1d_apar2mat_execute(
     params: V1dApar2matParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> V1dApar2matOutputs:
     """
+    1dApar2mat
+    
     Computes the affine transformation matrix from the set of 3dAllineate
     parameters.
     
@@ -183,10 +169,12 @@ def v_1d_apar2mat_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `V1dApar2matOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V_1D_APAR2MAT_METADATA)
     params = execution.params(params)
     cargs = v_1d_apar2mat_cargs(params, execution)
     ret = v_1d_apar2mat_outputs(params, execution)
@@ -210,6 +198,8 @@ def v_1d_apar2mat(
     runner: Runner | None = None,
 ) -> V1dApar2matOutputs:
     """
+    1dApar2mat
+    
     Computes the affine transformation matrix from the set of 3dAllineate
     parameters.
     
@@ -234,8 +224,6 @@ def v_1d_apar2mat(
     Returns:
         NamedTuple of outputs (described in `V1dApar2matOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V_1D_APAR2MAT_METADATA)
     params = v_1d_apar2mat_params(
         x_shift=x_shift,
         y_shift=y_shift,
@@ -250,13 +238,13 @@ def v_1d_apar2mat(
         z_x_shear=z_x_shear,
         z_y_shear=z_y_shear,
     )
-    return v_1d_apar2mat_execute(params, execution)
+    return v_1d_apar2mat_execute(params, runner)
 
 
 __all__ = [
     "V1dApar2matOutputs",
-    "V1dApar2matParameters",
     "V_1D_APAR2MAT_METADATA",
     "v_1d_apar2mat",
+    "v_1d_apar2mat_execute",
     "v_1d_apar2mat_params",
 ]

niwrap_afni/afni/v_1d_astrip.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V_1D_ASTRIP_METADATA = Metadata(
-    id="2aea6d9a25067a9ea93b108537a720deaa6d64fe.boutiques",
+    id="cd3707044d51e37b30b478fdfc860e9d133d8ffa.boutiques",
     name="1dAstrip",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,46 +14,18 @@ V_1D_ASTRIP_METADATA = Metadata(
 
 
 V1dAstripParameters = typing.TypedDict('V1dAstripParameters', {
-    "__STYXTYPE__": typing.Literal["1dAstrip"],
+    "@type": typing.NotRequired[typing.Literal["afni/1dAstrip"]],
+    "infile": InputPathType,
+})
+V1dAstripParametersTagged = typing.TypedDict('V1dAstripParametersTagged', {
+    "@type": typing.Literal["afni/1dAstrip"],
     "infile": InputPathType,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "1dAstrip": v_1d_astrip_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 {
-        "1dAstrip": v_1d_astrip_outputs,
-    }.get(t)
 
 
 class V1dAstripOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v_1d_astrip(...)`.
+    Output object returned when calling `V1dAstripParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -63,7 +35,7 @@ class V1dAstripOutputs(typing.NamedTuple):
 
 def v_1d_astrip_params(
     infile: InputPathType,
-) -> V1dAstripParameters:
+) -> V1dAstripParametersTagged:
     """
     Build parameters.
     
@@ -73,7 +45,7 @@ def v_1d_astrip_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "1dAstrip",
+        "@type": "afni/1dAstrip",
         "infile": infile,
     }
     return params
@@ -94,7 +66,7 @@ def v_1d_astrip_cargs(
     """
     cargs = []
     cargs.append("1dAstrip")
-    cargs.append("< " + execution.input_file(params.get("infile")))
+    cargs.append("< " + execution.input_file(params.get("infile", None)))
     return cargs
 
 
@@ -120,9 +92,11 @@ def v_1d_astrip_outputs(
 
 def v_1d_astrip_execute(
     params: V1dAstripParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> V1dAstripOutputs:
     """
+    1dAstrip
+    
     Strips non-numeric characters from a file.
     
     Author: AFNI Developers
@@ -131,10 +105,12 @@ def v_1d_astrip_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `V1dAstripOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V_1D_ASTRIP_METADATA)
     params = execution.params(params)
     cargs = v_1d_astrip_cargs(params, execution)
     ret = v_1d_astrip_outputs(params, execution)
@@ -147,6 +123,8 @@ def v_1d_astrip(
     runner: Runner | None = None,
 ) -> V1dAstripOutputs:
     """
+    1dAstrip
+    
     Strips non-numeric characters from a file.
     
     Author: AFNI Developers
@@ -159,18 +137,16 @@ def v_1d_astrip(
     Returns:
         NamedTuple of outputs (described in `V1dAstripOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V_1D_ASTRIP_METADATA)
     params = v_1d_astrip_params(
         infile=infile,
     )
-    return v_1d_astrip_execute(params, execution)
+    return v_1d_astrip_execute(params, runner)
 
 
 __all__ = [
     "V1dAstripOutputs",
-    "V1dAstripParameters",
     "V_1D_ASTRIP_METADATA",
     "v_1d_astrip",
+    "v_1d_astrip_execute",
     "v_1d_astrip_params",
 ]

niwrap_afni/afni/v_1d_bandpass.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V_1D_BANDPASS_METADATA = Metadata(
-    id="104ecd08be741b5ae61424022bc0666d569805e3.boutiques",
+    id="b2059d142bea69c6d41d2aeaeddd1bf0a7feffa9.boutiques",
     name="1dBandpass",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,7 +14,17 @@ V_1D_BANDPASS_METADATA = Metadata(
 
 
 V1dBandpassParameters = typing.TypedDict('V1dBandpassParameters', {
-    "__STYXTYPE__": typing.Literal["1dBandpass"],
+    "@type": typing.NotRequired[typing.Literal["afni/1dBandpass"]],
+    "fbot": float,
+    "ftop": float,
+    "infile": InputPathType,
+    "timestep": typing.NotRequired[float | None],
+    "ortfile": typing.NotRequired[InputPathType | None],
+    "nodetrend": bool,
+    "norm": bool,
+})
+V1dBandpassParametersTagged = typing.TypedDict('V1dBandpassParametersTagged', {
+    "@type": typing.Literal["afni/1dBandpass"],
     "fbot": float,
     "ftop": float,
     "infile": InputPathType,
@@ -23,42 +33,11 @@ V1dBandpassParameters = typing.TypedDict('V1dBandpassParameters', {
     "nodetrend": bool,
     "norm": bool,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "1dBandpass": v_1d_bandpass_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 {
-    }.get(t)
 
 
 class V1dBandpassOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v_1d_bandpass(...)`.
+    Output object returned when calling `V1dBandpassParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -72,7 +51,7 @@ def v_1d_bandpass_params(
     ortfile: InputPathType | None = None,
     nodetrend: bool = False,
     norm: bool = False,
-) -> V1dBandpassParameters:
+) -> V1dBandpassParametersTagged:
     """
     Build parameters.
     
@@ -91,7 +70,7 @@ def v_1d_bandpass_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "1dBandpass",
+        "@type": "afni/1dBandpass",
         "fbot": fbot,
         "ftop": ftop,
         "infile": infile,
@@ -120,22 +99,22 @@ def v_1d_bandpass_cargs(
     """
     cargs = []
     cargs.append("1dBandpass")
-    cargs.append(str(params.get("fbot")))
-    cargs.append(str(params.get("ftop")))
-    cargs.append(execution.input_file(params.get("infile")))
-    if params.get("timestep") is not None:
+    cargs.append(str(params.get("fbot", None)))
+    cargs.append(str(params.get("ftop", None)))
+    cargs.append(execution.input_file(params.get("infile", None)))
+    if params.get("timestep", None) is not None:
         cargs.extend([
             "-dt",
-            str(params.get("timestep"))
+            str(params.get("timestep", None))
         ])
-    if params.get("ortfile") is not None:
+    if params.get("ortfile", None) is not None:
         cargs.extend([
             "-ort",
-            execution.input_file(params.get("ortfile"))
+            execution.input_file(params.get("ortfile", None))
         ])
-    if params.get("nodetrend"):
+    if params.get("nodetrend", False):
         cargs.append("-nodetrend")
-    if params.get("norm"):
+    if params.get("norm", False):
         cargs.append("-norm")
     return cargs
 
@@ -161,9 +140,11 @@ def v_1d_bandpass_outputs(
 
 def v_1d_bandpass_execute(
     params: V1dBandpassParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> V1dBandpassOutputs:
     """
+    1dBandpass
+    
     Bandpass filtering of time series data in AFNI *.1D files.
     
     Author: AFNI Developers
@@ -172,10 +153,12 @@ def v_1d_bandpass_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `V1dBandpassOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V_1D_BANDPASS_METADATA)
     params = execution.params(params)
     cargs = v_1d_bandpass_cargs(params, execution)
     ret = v_1d_bandpass_outputs(params, execution)
@@ -194,6 +177,8 @@ def v_1d_bandpass(
     runner: Runner | None = None,
 ) -> V1dBandpassOutputs:
     """
+    1dBandpass
+    
     Bandpass filtering of time series data in AFNI *.1D files.
     
     Author: AFNI Developers
@@ -215,8 +200,6 @@ def v_1d_bandpass(
     Returns:
         NamedTuple of outputs (described in `V1dBandpassOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V_1D_BANDPASS_METADATA)
     params = v_1d_bandpass_params(
         fbot=fbot,
         ftop=ftop,
@@ -226,13 +209,13 @@ def v_1d_bandpass(
         nodetrend=nodetrend,
         norm=norm,
     )
-    return v_1d_bandpass_execute(params, execution)
+    return v_1d_bandpass_execute(params, runner)
 
 
 __all__ = [
     "V1dBandpassOutputs",
-    "V1dBandpassParameters",
     "V_1D_BANDPASS_METADATA",
     "v_1d_bandpass",
+    "v_1d_bandpass_execute",
     "v_1d_bandpass_params",
 ]