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

niwrap_afni/afni/v_3d_xyzcat.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V_3D_XYZCAT_METADATA = Metadata(
-    id="6187e73a39e2b8fe582b14ee9e2a4f3ca6740b27.boutiques",
+    id="c496e923b51b6f502635d41461cd749df480851d.boutiques",
     name="3dXYZcat",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,49 +14,24 @@ V_3D_XYZCAT_METADATA = Metadata(
 
 
 V3dXyzcatParameters = typing.TypedDict('V3dXyzcatParameters', {
-    "__STYXTYPE__": typing.Literal["3dXYZcat"],
+    "@type": typing.NotRequired[typing.Literal["afni/3dXYZcat"]],
+    "direction": typing.NotRequired[str | None],
+    "prefix": typing.NotRequired[str | None],
+    "verbose": bool,
+    "datasets": list[InputPathType],
+})
+V3dXyzcatParametersTagged = typing.TypedDict('V3dXyzcatParametersTagged', {
+    "@type": typing.Literal["afni/3dXYZcat"],
     "direction": typing.NotRequired[str | None],
     "prefix": typing.NotRequired[str | None],
     "verbose": bool,
     "datasets": 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 {
-        "3dXYZcat": v_3d_xyzcat_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 {
-        "3dXYZcat": v_3d_xyzcat_outputs,
-    }.get(t)
 
 
 class V3dXyzcatOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v_3d_xyzcat(...)`.
+    Output object returned when calling `V3dXyzcatParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -71,7 +46,7 @@ def v_3d_xyzcat_params(
     direction: str | None = None,
     prefix: str | None = None,
     verbose: bool = False,
-) -> V3dXyzcatParameters:
+) -> V3dXyzcatParametersTagged:
     """
     Build parameters.
     
@@ -85,7 +60,7 @@ def v_3d_xyzcat_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "3dXYZcat",
+        "@type": "afni/3dXYZcat",
         "verbose": verbose,
         "datasets": datasets,
     }
@@ -111,19 +86,19 @@ def v_3d_xyzcat_cargs(
     """
     cargs = []
     cargs.append("3dXYZcat")
-    if params.get("direction") is not None:
+    if params.get("direction", None) is not None:
         cargs.extend([
             "-dir",
-            params.get("direction")
+            params.get("direction", None)
         ])
-    if params.get("prefix") is not None:
+    if params.get("prefix", None) is not None:
         cargs.extend([
             "-prefix",
-            params.get("prefix")
+            params.get("prefix", None)
         ])
-    if params.get("verbose"):
+    if params.get("verbose", False):
         cargs.append("-verb")
-    cargs.extend([execution.input_file(f) for f in params.get("datasets")])
+    cargs.extend([execution.input_file(f) for f in params.get("datasets", None)])
     return cargs
 
 
@@ -142,17 +117,19 @@ def v_3d_xyzcat_outputs(
     """
     ret = V3dXyzcatOutputs(
         root=execution.output_file("."),
-        output_brainfile=execution.output_file(params.get("prefix") + "+orig.BRIK") if (params.get("prefix") is not None) else None,
-        output_headerfile=execution.output_file(params.get("prefix") + "+orig.HEAD") if (params.get("prefix") is not None) else None,
+        output_brainfile=execution.output_file(params.get("prefix", None) + "+orig.BRIK") if (params.get("prefix") is not None) else None,
+        output_headerfile=execution.output_file(params.get("prefix", None) + "+orig.HEAD") if (params.get("prefix") is not None) else None,
     )
     return ret
 
 
 def v_3d_xyzcat_execute(
     params: V3dXyzcatParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> V3dXyzcatOutputs:
     """
+    3dXYZcat
+    
     Catenates datasets spatially.
     
     Author: AFNI Developers
@@ -161,10 +138,12 @@ def v_3d_xyzcat_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `V3dXyzcatOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V_3D_XYZCAT_METADATA)
     params = execution.params(params)
     cargs = v_3d_xyzcat_cargs(params, execution)
     ret = v_3d_xyzcat_outputs(params, execution)
@@ -180,6 +159,8 @@ def v_3d_xyzcat(
     runner: Runner | None = None,
 ) -> V3dXyzcatOutputs:
     """
+    3dXYZcat
+    
     Catenates datasets spatially.
     
     Author: AFNI Developers
@@ -196,21 +177,19 @@ def v_3d_xyzcat(
     Returns:
         NamedTuple of outputs (described in `V3dXyzcatOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V_3D_XYZCAT_METADATA)
     params = v_3d_xyzcat_params(
         direction=direction,
         prefix=prefix,
         verbose=verbose,
         datasets=datasets,
     )
-    return v_3d_xyzcat_execute(params, execution)
+    return v_3d_xyzcat_execute(params, runner)
 
 
 __all__ = [
     "V3dXyzcatOutputs",
-    "V3dXyzcatParameters",
     "V_3D_XYZCAT_METADATA",
     "v_3d_xyzcat",
+    "v_3d_xyzcat_execute",
     "v_3d_xyzcat_params",
 ]

niwrap_afni/afni/v_3d_zcat.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V_3D_ZCAT_METADATA = Metadata(
-    id="f09932d1f0c48de36aaac052798af4aa5ecaae6f.boutiques",
+    id="f8b6d970d79a1b34aa5cdfe38573a01caa7d1505.boutiques",
     name="3dZcat",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,7 +14,17 @@ V_3D_ZCAT_METADATA = Metadata(
 
 
 V3dZcatParameters = typing.TypedDict('V3dZcatParameters', {
-    "__STYXTYPE__": typing.Literal["3dZcat"],
+    "@type": typing.NotRequired[typing.Literal["afni/3dZcat"]],
+    "prefix": typing.NotRequired[str | None],
+    "datum": typing.NotRequired[typing.Literal["byte", "short", "float"] | None],
+    "fscale": bool,
+    "nscale": bool,
+    "verb": bool,
+    "frugal": bool,
+    "input_files": list[InputPathType],
+})
+V3dZcatParametersTagged = typing.TypedDict('V3dZcatParametersTagged', {
+    "@type": typing.Literal["afni/3dZcat"],
     "prefix": typing.NotRequired[str | None],
     "datum": typing.NotRequired[typing.Literal["byte", "short", "float"] | None],
     "fscale": bool,
@@ -23,43 +33,11 @@ V3dZcatParameters = typing.TypedDict('V3dZcatParameters', {
     "frugal": bool,
     "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 {
-        "3dZcat": v_3d_zcat_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 {
-        "3dZcat": v_3d_zcat_outputs,
-    }.get(t)
 
 
 class V3dZcatOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v_3d_zcat(...)`.
+    Output object returned when calling `V3dZcatParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -77,7 +55,7 @@ def v_3d_zcat_params(
     nscale: bool = False,
     verb: bool = False,
     frugal: bool = False,
-) -> V3dZcatParameters:
+) -> V3dZcatParametersTagged:
     """
     Build parameters.
     
@@ -102,7 +80,7 @@ def v_3d_zcat_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "3dZcat",
+        "@type": "afni/3dZcat",
         "fscale": fscale,
         "nscale": nscale,
         "verb": verb,
@@ -131,25 +109,25 @@ def v_3d_zcat_cargs(
     """
     cargs = []
     cargs.append("3dZcat")
-    if params.get("prefix") is not None:
+    if params.get("prefix", None) is not None:
         cargs.extend([
             "-prefix",
-            params.get("prefix")
+            params.get("prefix", None)
         ])
-    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)
         ])
-    if params.get("fscale"):
+    if params.get("fscale", False):
         cargs.append("-fscale")
-    if params.get("nscale"):
+    if params.get("nscale", False):
         cargs.append("-nscale")
-    if params.get("verb"):
+    if params.get("verb", False):
         cargs.append("-verb")
-    if params.get("frugal"):
+    if params.get("frugal", False):
         cargs.append("-frugal")
-    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
 
 
@@ -168,17 +146,19 @@ def v_3d_zcat_outputs(
     """
     ret = V3dZcatOutputs(
         root=execution.output_file("."),
-        out_head=execution.output_file(params.get("prefix") + "+orig.HEAD") if (params.get("prefix") is not None) else None,
-        out_brik=execution.output_file(params.get("prefix") + "+orig.BRIK") if (params.get("prefix") is not None) else None,
+        out_head=execution.output_file(params.get("prefix", None) + "+orig.HEAD") if (params.get("prefix") is not None) else None,
+        out_brik=execution.output_file(params.get("prefix", None) + "+orig.BRIK") if (params.get("prefix") is not None) else None,
     )
     return ret
 
 
 def v_3d_zcat_execute(
     params: V3dZcatParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> V3dZcatOutputs:
     """
+    3dZcat
+    
     Concatenates datasets in the slice (z) direction.
     
     Author: AFNI Developers
@@ -187,10 +167,12 @@ def v_3d_zcat_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `V3dZcatOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V_3D_ZCAT_METADATA)
     params = execution.params(params)
     cargs = v_3d_zcat_cargs(params, execution)
     ret = v_3d_zcat_outputs(params, execution)
@@ -209,6 +191,8 @@ def v_3d_zcat(
     runner: Runner | None = None,
 ) -> V3dZcatOutputs:
     """
+    3dZcat
+    
     Concatenates datasets in the slice (z) direction.
     
     Author: AFNI Developers
@@ -236,8 +220,6 @@ def v_3d_zcat(
     Returns:
         NamedTuple of outputs (described in `V3dZcatOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V_3D_ZCAT_METADATA)
     params = v_3d_zcat_params(
         prefix=prefix,
         datum=datum,
@@ -247,13 +229,13 @@ def v_3d_zcat(
         frugal=frugal,
         input_files=input_files,
     )
-    return v_3d_zcat_execute(params, execution)
+    return v_3d_zcat_execute(params, runner)
 
 
 __all__ = [
     "V3dZcatOutputs",
-    "V3dZcatParameters",
     "V_3D_ZCAT_METADATA",
     "v_3d_zcat",
+    "v_3d_zcat_execute",
     "v_3d_zcat_params",
 ]

niwrap_afni/afni/v_3d_zcutup.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V_3D_ZCUTUP_METADATA = Metadata(
-    id="da952f2c6d1682e69ef1ef9b1f9dce9d5eeaa1da.boutiques",
+    id="7f841bd4dfbc27b4d2e1ea682e9cf137e9548bea.boutiques",
     name="3dZcutup",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,48 +14,22 @@ V_3D_ZCUTUP_METADATA = Metadata(
 
 
 V3dZcutupParameters = typing.TypedDict('V3dZcutupParameters', {
-    "__STYXTYPE__": typing.Literal["3dZcutup"],
+    "@type": typing.NotRequired[typing.Literal["afni/3dZcutup"]],
+    "keep_slices": str,
+    "prefix": typing.NotRequired[str | None],
+    "dataset": InputPathType,
+})
+V3dZcutupParametersTagged = typing.TypedDict('V3dZcutupParametersTagged', {
+    "@type": typing.Literal["afni/3dZcutup"],
     "keep_slices": str,
     "prefix": typing.NotRequired[str | None],
     "dataset": InputPathType,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "3dZcutup": v_3d_zcutup_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 {
-        "3dZcutup": v_3d_zcutup_outputs,
-    }.get(t)
 
 
 class V3dZcutupOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v_3d_zcutup(...)`.
+    Output object returned when calling `V3dZcutupParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -69,7 +43,7 @@ def v_3d_zcutup_params(
     keep_slices: str,
     dataset: InputPathType,
     prefix: str | None = None,
-) -> V3dZcutupParameters:
+) -> V3dZcutupParametersTagged:
     """
     Build parameters.
     
@@ -84,7 +58,7 @@ def v_3d_zcutup_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "3dZcutup",
+        "@type": "afni/3dZcutup",
         "keep_slices": keep_slices,
         "dataset": dataset,
     }
@@ -110,14 +84,14 @@ def v_3d_zcutup_cargs(
     cargs.append("3dZcutup")
     cargs.extend([
         "-keep",
-        params.get("keep_slices")
+        params.get("keep_slices", None)
     ])
-    if params.get("prefix") is not None:
+    if params.get("prefix", None) is not None:
         cargs.extend([
             "-prefix",
-            params.get("prefix")
+            params.get("prefix", None)
         ])
-    cargs.append(execution.input_file(params.get("dataset")))
+    cargs.append(execution.input_file(params.get("dataset", None)))
     return cargs
 
 
@@ -136,17 +110,19 @@ def v_3d_zcutup_outputs(
     """
     ret = V3dZcutupOutputs(
         root=execution.output_file("."),
-        output_head=execution.output_file(params.get("prefix") + "+orig.HEAD") if (params.get("prefix") is not None) else None,
-        output_brik=execution.output_file(params.get("prefix") + "+orig.BRIK") if (params.get("prefix") is not None) else None,
+        output_head=execution.output_file(params.get("prefix", None) + "+orig.HEAD") if (params.get("prefix") is not None) else None,
+        output_brik=execution.output_file(params.get("prefix", None) + "+orig.BRIK") if (params.get("prefix") is not None) else None,
     )
     return ret
 
 
 def v_3d_zcutup_execute(
     params: V3dZcutupParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> V3dZcutupOutputs:
     """
+    3dZcutup
+    
     Cut slices off a dataset in its z-direction and write a new dataset.
     
     Author: AFNI Developers
@@ -155,10 +131,12 @@ def v_3d_zcutup_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `V3dZcutupOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V_3D_ZCUTUP_METADATA)
     params = execution.params(params)
     cargs = v_3d_zcutup_cargs(params, execution)
     ret = v_3d_zcutup_outputs(params, execution)
@@ -173,6 +151,8 @@ def v_3d_zcutup(
     runner: Runner | None = None,
 ) -> V3dZcutupOutputs:
     """
+    3dZcutup
+    
     Cut slices off a dataset in its z-direction and write a new dataset.
     
     Author: AFNI Developers
@@ -190,20 +170,18 @@ def v_3d_zcutup(
     Returns:
         NamedTuple of outputs (described in `V3dZcutupOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V_3D_ZCUTUP_METADATA)
     params = v_3d_zcutup_params(
         keep_slices=keep_slices,
         prefix=prefix,
         dataset=dataset,
     )
-    return v_3d_zcutup_execute(params, execution)
+    return v_3d_zcutup_execute(params, runner)
 
 
 __all__ = [
     "V3dZcutupOutputs",
-    "V3dZcutupParameters",
     "V_3D_ZCUTUP_METADATA",
     "v_3d_zcutup",
+    "v_3d_zcutup_execute",
     "v_3d_zcutup_params",
 ]