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

niwrap_afni/afni/v_3d_tsmooth.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V_3D_TSMOOTH_METADATA = Metadata(
-    id="aa6dd3c1515c93b42935ecf05bfb0b6f2739b26b.boutiques",
+    id="3db17981529d52a5b5608759bc63ca9447ff22b5.boutiques",
     name="3dTsmooth",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,7 +14,24 @@ V_3D_TSMOOTH_METADATA = Metadata(
 
 
 V3dTsmoothParameters = typing.TypedDict('V3dTsmoothParameters', {
-    "__STYXTYPE__": typing.Literal["3dTsmooth"],
+    "@type": typing.NotRequired[typing.Literal["afni/3dTsmooth"]],
+    "input_dataset": InputPathType,
+    "prefix": typing.NotRequired[str | None],
+    "datum_type": typing.NotRequired[str | None],
+    "lin_filter": bool,
+    "med_filter": bool,
+    "osf_filter": bool,
+    "lin_filter_custom": typing.NotRequired[float | None],
+    "hamming": typing.NotRequired[int | None],
+    "blackman": typing.NotRequired[int | None],
+    "custom_filter": typing.NotRequired[InputPathType | None],
+    "extend": bool,
+    "zero": bool,
+    "trend": bool,
+    "adaptive": typing.NotRequired[int | None],
+})
+V3dTsmoothParametersTagged = typing.TypedDict('V3dTsmoothParametersTagged', {
+    "@type": typing.Literal["afni/3dTsmooth"],
     "input_dataset": InputPathType,
     "prefix": typing.NotRequired[str | None],
     "datum_type": typing.NotRequired[str | None],
@@ -30,43 +47,11 @@ V3dTsmoothParameters = typing.TypedDict('V3dTsmoothParameters', {
     "trend": bool,
     "adaptive": typing.NotRequired[int | None],
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "3dTsmooth": v_3d_tsmooth_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 {
-        "3dTsmooth": v_3d_tsmooth_outputs,
-    }.get(t)
 
 
 class V3dTsmoothOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v_3d_tsmooth(...)`.
+    Output object returned when calling `V3dTsmoothParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -89,7 +74,7 @@ def v_3d_tsmooth_params(
     zero: bool = False,
     trend: bool = False,
     adaptive: int | None = None,
-) -> V3dTsmoothParameters:
+) -> V3dTsmoothParametersTagged:
     """
     Build parameters.
     
@@ -116,7 +101,7 @@ def v_3d_tsmooth_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "3dTsmooth",
+        "@type": "afni/3dTsmooth",
         "input_dataset": input_dataset,
         "lin_filter": lin_filter,
         "med_filter": med_filter,
@@ -157,53 +142,53 @@ def v_3d_tsmooth_cargs(
     """
     cargs = []
     cargs.append("3dTsmooth")
-    cargs.append(execution.input_file(params.get("input_dataset")))
-    if params.get("prefix") is not None:
+    cargs.append(execution.input_file(params.get("input_dataset", None)))
+    if params.get("prefix", None) is not None:
         cargs.extend([
             "-prefix",
-            params.get("prefix")
+            params.get("prefix", None)
         ])
-    if params.get("datum_type") is not None:
+    if params.get("datum_type", None) is not None:
         cargs.extend([
             "-datum",
-            params.get("datum_type")
+            params.get("datum_type", None)
         ])
-    if params.get("lin_filter"):
+    if params.get("lin_filter", False):
         cargs.append("-lin")
-    if params.get("med_filter"):
+    if params.get("med_filter", False):
         cargs.append("-med")
-    if params.get("osf_filter"):
+    if params.get("osf_filter", False):
         cargs.append("-osf")
-    if params.get("lin_filter_custom") is not None:
+    if params.get("lin_filter_custom", None) is not None:
         cargs.extend([
             "-3lin",
-            str(params.get("lin_filter_custom"))
+            str(params.get("lin_filter_custom", None))
         ])
-    if params.get("hamming") is not None:
+    if params.get("hamming", None) is not None:
         cargs.extend([
             "-hamming",
-            str(params.get("hamming"))
+            str(params.get("hamming", None))
         ])
-    if params.get("blackman") is not None:
+    if params.get("blackman", None) is not None:
         cargs.extend([
             "-blackman",
-            str(params.get("blackman"))
+            str(params.get("blackman", None))
         ])
-    if params.get("custom_filter") is not None:
+    if params.get("custom_filter", None) is not None:
         cargs.extend([
             "-custom",
-            execution.input_file(params.get("custom_filter"))
+            execution.input_file(params.get("custom_filter", None))
         ])
-    if params.get("extend"):
+    if params.get("extend", False):
         cargs.append("-EXTEND")
-    if params.get("zero"):
+    if params.get("zero", False):
         cargs.append("-ZERO")
-    if params.get("trend"):
+    if params.get("trend", False):
         cargs.append("-TREND")
-    if params.get("adaptive") is not None:
+    if params.get("adaptive", None) is not None:
         cargs.extend([
             "-adaptive",
-            str(params.get("adaptive"))
+            str(params.get("adaptive", None))
         ])
     return cargs
 
@@ -223,18 +208,20 @@ def v_3d_tsmooth_outputs(
     """
     ret = V3dTsmoothOutputs(
         root=execution.output_file("."),
-        output_dataset=execution.output_file(params.get("prefix") + ".nii.gz") if (params.get("prefix") is not None) else None,
+        output_dataset=execution.output_file(params.get("prefix", None) + ".nii.gz") if (params.get("prefix") is not None) else None,
     )
     return ret
 
 
 def v_3d_tsmooth_execute(
     params: V3dTsmoothParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> V3dTsmoothOutputs:
     """
-    Smooths each voxel time series in a 3D+time dataset and produces as output a new
-    3D+time dataset (e.g., lowpass filter in time).
+    3dTsmooth
+    
+    Smooths each voxel time series in a 3D+time dataset and produces as output a
+    new 3D+time dataset (e.g., lowpass filter in time).
     
     Author: AFNI Developers
     
@@ -242,10 +229,12 @@ def v_3d_tsmooth_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `V3dTsmoothOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V_3D_TSMOOTH_METADATA)
     params = execution.params(params)
     cargs = v_3d_tsmooth_cargs(params, execution)
     ret = v_3d_tsmooth_outputs(params, execution)
@@ -271,8 +260,10 @@ def v_3d_tsmooth(
     runner: Runner | None = None,
 ) -> V3dTsmoothOutputs:
     """
-    Smooths each voxel time series in a 3D+time dataset and produces as output a new
-    3D+time dataset (e.g., lowpass filter in time).
+    3dTsmooth
+    
+    Smooths each voxel time series in a 3D+time dataset and produces as output a
+    new 3D+time dataset (e.g., lowpass filter in time).
     
     Author: AFNI Developers
     
@@ -301,8 +292,6 @@ def v_3d_tsmooth(
     Returns:
         NamedTuple of outputs (described in `V3dTsmoothOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V_3D_TSMOOTH_METADATA)
     params = v_3d_tsmooth_params(
         input_dataset=input_dataset,
         prefix=prefix,
@@ -319,13 +308,13 @@ def v_3d_tsmooth(
         trend=trend,
         adaptive=adaptive,
     )
-    return v_3d_tsmooth_execute(params, execution)
+    return v_3d_tsmooth_execute(params, runner)
 
 
 __all__ = [
     "V3dTsmoothOutputs",
-    "V3dTsmoothParameters",
     "V_3D_TSMOOTH_METADATA",
     "v_3d_tsmooth",
+    "v_3d_tsmooth_execute",
     "v_3d_tsmooth_params",
 ]

niwrap_afni/afni/v_3d_tsort.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V_3D_TSORT_METADATA = Metadata(
-    id="57a44e6cf176a45cac2081b1b5e5c2beead9d843.boutiques",
+    id="5d9ca58028660f8bc8ecbc139838677b6c58e892.boutiques",
     name="3dTsort",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,7 +14,21 @@ V_3D_TSORT_METADATA = Metadata(
 
 
 V3dTsortParameters = typing.TypedDict('V3dTsortParameters', {
-    "__STYXTYPE__": typing.Literal["3dTsort"],
+    "@type": typing.NotRequired[typing.Literal["afni/3dTsort"]],
+    "input_file": InputPathType,
+    "prefix": typing.NotRequired[str | None],
+    "inc": bool,
+    "dec": bool,
+    "rank": bool,
+    "ind": bool,
+    "val": bool,
+    "random": bool,
+    "ranfft": bool,
+    "randft": bool,
+    "datum": typing.NotRequired[str | None],
+})
+V3dTsortParametersTagged = typing.TypedDict('V3dTsortParametersTagged', {
+    "@type": typing.Literal["afni/3dTsort"],
     "input_file": InputPathType,
     "prefix": typing.NotRequired[str | None],
     "inc": bool,
@@ -27,43 +41,11 @@ V3dTsortParameters = typing.TypedDict('V3dTsortParameters', {
     "randft": bool,
     "datum": 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 {
-        "3dTsort": v_3d_tsort_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 {
-        "3dTsort": v_3d_tsort_outputs,
-    }.get(t)
 
 
 class V3dTsortOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v_3d_tsort(...)`.
+    Output object returned when calling `V3dTsortParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -83,7 +65,7 @@ def v_3d_tsort_params(
     ranfft: bool = False,
     randft: bool = False,
     datum: str | None = None,
-) -> V3dTsortParameters:
+) -> V3dTsortParametersTagged:
     """
     Build parameters.
     
@@ -104,7 +86,7 @@ def v_3d_tsort_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "3dTsort",
+        "@type": "afni/3dTsort",
         "input_file": input_file,
         "inc": inc,
         "dec": dec,
@@ -137,32 +119,32 @@ def v_3d_tsort_cargs(
     """
     cargs = []
     cargs.append("3dTsort")
-    cargs.append(execution.input_file(params.get("input_file")))
-    if params.get("prefix") is not None:
+    cargs.append(execution.input_file(params.get("input_file", None)))
+    if params.get("prefix", None) is not None:
         cargs.extend([
             "-prefix",
-            params.get("prefix")
+            params.get("prefix", None)
         ])
-    if params.get("inc"):
+    if params.get("inc", False):
         cargs.append("-inc")
-    if params.get("dec"):
+    if params.get("dec", False):
         cargs.append("-dec")
-    if params.get("rank"):
+    if params.get("rank", False):
         cargs.append("-rank")
-    if params.get("ind"):
+    if params.get("ind", False):
         cargs.append("-ind")
-    if params.get("val"):
+    if params.get("val", False):
         cargs.append("-val")
-    if params.get("random"):
+    if params.get("random", False):
         cargs.append("-random")
-    if params.get("ranfft"):
+    if params.get("ranfft", False):
         cargs.append("-ranFFT")
-    if params.get("randft"):
+    if params.get("randft", False):
         cargs.append("-ranDFT")
-    if params.get("datum") is not None:
+    if params.get("datum", None) is not None:
         cargs.extend([
             "-datum",
-            params.get("datum")
+            params.get("datum", None)
         ])
     return cargs
 
@@ -182,16 +164,18 @@ def v_3d_tsort_outputs(
     """
     ret = V3dTsortOutputs(
         root=execution.output_file("."),
-        output_dataset=execution.output_file(params.get("prefix") + ".nii.gz") if (params.get("prefix") is not None) else None,
+        output_dataset=execution.output_file(params.get("prefix", None) + ".nii.gz") if (params.get("prefix") is not None) else None,
     )
     return ret
 
 
 def v_3d_tsort_execute(
     params: V3dTsortParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> V3dTsortOutputs:
     """
+    3dTsort
+    
     Sorts each voxel in a dataset and produces a new dataset.
     
     Author: AFNI Developers
@@ -200,10 +184,12 @@ def v_3d_tsort_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `V3dTsortOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V_3D_TSORT_METADATA)
     params = execution.params(params)
     cargs = v_3d_tsort_cargs(params, execution)
     ret = v_3d_tsort_outputs(params, execution)
@@ -226,6 +212,8 @@ def v_3d_tsort(
     runner: Runner | None = None,
 ) -> V3dTsortOutputs:
     """
+    3dTsort
+    
     Sorts each voxel in a dataset and produces a new dataset.
     
     Author: AFNI Developers
@@ -249,8 +237,6 @@ def v_3d_tsort(
     Returns:
         NamedTuple of outputs (described in `V3dTsortOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V_3D_TSORT_METADATA)
     params = v_3d_tsort_params(
         input_file=input_file,
         prefix=prefix,
@@ -264,13 +250,13 @@ def v_3d_tsort(
         randft=randft,
         datum=datum,
     )
-    return v_3d_tsort_execute(params, execution)
+    return v_3d_tsort_execute(params, runner)
 
 
 __all__ = [
     "V3dTsortOutputs",
-    "V3dTsortParameters",
     "V_3D_TSORT_METADATA",
     "v_3d_tsort",
+    "v_3d_tsort_execute",
     "v_3d_tsort_params",
 ]

niwrap_afni/afni/v_3d_tsplit4_d.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V_3D_TSPLIT4_D_METADATA = Metadata(
-    id="3a3e4440f95ee533103d741ae69655e18e88d3db.boutiques",
+    id="f793f3b639c9da84b752d9dfa8909607817a79ec.boutiques",
     name="3dTsplit4D",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,54 +14,27 @@ V_3D_TSPLIT4_D_METADATA = Metadata(
 
 
 V3dTsplit4DParameters = typing.TypedDict('V3dTsplit4DParameters', {
-    "__STYXTYPE__": typing.Literal["3dTsplit4D"],
+    "@type": typing.NotRequired[typing.Literal["afni/3dTsplit4D"]],
+    "prefix": str,
+    "infile": InputPathType,
+    "keep_datum": bool,
+    "digits": typing.NotRequired[float | None],
+})
+V3dTsplit4DParametersTagged = typing.TypedDict('V3dTsplit4DParametersTagged', {
+    "@type": typing.Literal["afni/3dTsplit4D"],
     "prefix": str,
     "infile": InputPathType,
     "keep_datum": bool,
     "digits": 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 {
-        "3dTsplit4D": v_3d_tsplit4_d_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 {
-        "3dTsplit4D": v_3d_tsplit4_d_outputs,
-    }.get(t)
 
 
 class V3dTsplit4DOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v_3d_tsplit4_d(...)`.
+    Output object returned when calling `V3dTsplit4DParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
-    outfiles: OutputPathType
-    """Multiple 3D single-brick output files"""
 
 
 def v_3d_tsplit4_d_params(
@@ -69,7 +42,7 @@ def v_3d_tsplit4_d_params(
     infile: InputPathType,
     keep_datum: bool = False,
     digits: float | None = None,
-) -> V3dTsplit4DParameters:
+) -> V3dTsplit4DParametersTagged:
     """
     Build parameters.
     
@@ -82,7 +55,7 @@ def v_3d_tsplit4_d_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "3dTsplit4D",
+        "@type": "afni/3dTsplit4D",
         "prefix": prefix,
         "infile": infile,
         "keep_datum": keep_datum,
@@ -109,15 +82,15 @@ def v_3d_tsplit4_d_cargs(
     cargs.append("3dTsplit4D")
     cargs.extend([
         "-prefix",
-        params.get("prefix")
+        params.get("prefix", None)
     ])
-    cargs.append(execution.input_file(params.get("infile")))
-    if params.get("keep_datum"):
+    cargs.append(execution.input_file(params.get("infile", None)))
+    if params.get("keep_datum", False):
         cargs.append("-keep_datum")
-    if params.get("digits") is not None:
+    if params.get("digits", None) is not None:
         cargs.extend([
             "-digits",
-            str(params.get("digits"))
+            str(params.get("digits", None))
         ])
     return cargs
 
@@ -137,16 +110,17 @@ def v_3d_tsplit4_d_outputs(
     """
     ret = V3dTsplit4DOutputs(
         root=execution.output_file("."),
-        outfiles=execution.output_file(params.get("prefix") + "*"),
     )
     return ret
 
 
 def v_3d_tsplit4_d_execute(
     params: V3dTsplit4DParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> V3dTsplit4DOutputs:
     """
+    3dTsplit4D
+    
     Convert a 3D+time dataset into multiple 3D single-brick files.
     
     Author: AFNI Developers
@@ -155,10 +129,12 @@ def v_3d_tsplit4_d_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `V3dTsplit4DOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V_3D_TSPLIT4_D_METADATA)
     params = execution.params(params)
     cargs = v_3d_tsplit4_d_cargs(params, execution)
     ret = v_3d_tsplit4_d_outputs(params, execution)
@@ -174,6 +150,8 @@ def v_3d_tsplit4_d(
     runner: Runner | None = None,
 ) -> V3dTsplit4DOutputs:
     """
+    3dTsplit4D
+    
     Convert a 3D+time dataset into multiple 3D single-brick files.
     
     Author: AFNI Developers
@@ -189,21 +167,19 @@ def v_3d_tsplit4_d(
     Returns:
         NamedTuple of outputs (described in `V3dTsplit4DOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V_3D_TSPLIT4_D_METADATA)
     params = v_3d_tsplit4_d_params(
         prefix=prefix,
         infile=infile,
         keep_datum=keep_datum,
         digits=digits,
     )
-    return v_3d_tsplit4_d_execute(params, execution)
+    return v_3d_tsplit4_d_execute(params, runner)
 
 
 __all__ = [
     "V3dTsplit4DOutputs",
-    "V3dTsplit4DParameters",
     "V_3D_TSPLIT4_D_METADATA",
     "v_3d_tsplit4_d",
+    "v_3d_tsplit4_d_execute",
     "v_3d_tsplit4_d_params",
 ]