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

niwrap_afni/afni/v__electro_grid.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__ELECTRO_GRID_METADATA = Metadata(
-    id="8c1955ff5d63981d8778a40d725680192b793844.boutiques",
+    id="8ac7f5045194e5e0a61feb132b6f3dfdbb4abcc2.boutiques",
     name="@ElectroGrid",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,7 +14,16 @@ V__ELECTRO_GRID_METADATA = Metadata(
 
 
 VElectroGridParameters = typing.TypedDict('VElectroGridParameters', {
-    "__STYXTYPE__": typing.Literal["@ElectroGrid"],
+    "@type": typing.NotRequired[typing.Literal["afni/@ElectroGrid"]],
+    "strip": typing.NotRequired[int | None],
+    "grid": typing.NotRequired[list[int] | None],
+    "prefix": typing.NotRequired[str | None],
+    "coords": typing.NotRequired[InputPathType | None],
+    "with_markers": bool,
+    "echo": bool,
+})
+VElectroGridParametersTagged = typing.TypedDict('VElectroGridParametersTagged', {
+    "@type": typing.Literal["afni/@ElectroGrid"],
     "strip": typing.NotRequired[int | None],
     "grid": typing.NotRequired[list[int] | None],
     "prefix": typing.NotRequired[str | None],
@@ -22,43 +31,11 @@ VElectroGridParameters = typing.TypedDict('VElectroGridParameters', {
     "with_markers": bool,
     "echo": bool,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "@ElectroGrid": v__electro_grid_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 {
-        "@ElectroGrid": v__electro_grid_outputs,
-    }.get(t)
 
 
 class VElectroGridOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__electro_grid(...)`.
+    Output object returned when calling `VElectroGridParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -73,7 +50,7 @@ def v__electro_grid_params(
     coords: InputPathType | None = None,
     with_markers: bool = False,
     echo: bool = False,
-) -> VElectroGridParameters:
+) -> VElectroGridParametersTagged:
     """
     Build parameters.
     
@@ -91,7 +68,7 @@ def v__electro_grid_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@ElectroGrid",
+        "@type": "afni/@ElectroGrid",
         "with_markers": with_markers,
         "echo": echo,
     }
@@ -121,29 +98,29 @@ def v__electro_grid_cargs(
     """
     cargs = []
     cargs.append("@ElectroGrid")
-    if params.get("strip") is not None:
+    if params.get("strip", None) is not None:
         cargs.extend([
             "-strip",
-            str(params.get("strip"))
+            str(params.get("strip", None))
         ])
-    if params.get("grid") is not None:
+    if params.get("grid", None) is not None:
         cargs.extend([
             "-grid",
-            *map(str, params.get("grid"))
+            *map(str, params.get("grid", 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("coords") is not None:
+    if params.get("coords", None) is not None:
         cargs.extend([
             "-coords",
-            execution.input_file(params.get("coords"))
+            execution.input_file(params.get("coords", None))
         ])
-    if params.get("with_markers"):
+    if params.get("with_markers", False):
         cargs.append("-with_markers")
-    if params.get("echo"):
+    if params.get("echo", False):
         cargs.append("-echo")
     return cargs
 
@@ -163,16 +140,18 @@ def v__electro_grid_outputs(
     """
     ret = VElectroGridOutputs(
         root=execution.output_file("."),
-        output_surface=execution.output_file(params.get("prefix") + ".gii") if (params.get("prefix") is not None) else None,
+        output_surface=execution.output_file(params.get("prefix", None) + ".gii") if (params.get("prefix") is not None) else None,
     )
     return ret
 
 
 def v__electro_grid_execute(
     params: VElectroGridParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VElectroGridOutputs:
     """
+    @ElectroGrid
+    
     Creates a mesh representation of an electrode grid for use with SUMA.
     
     Author: AFNI Developers
@@ -181,10 +160,12 @@ def v__electro_grid_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VElectroGridOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__ELECTRO_GRID_METADATA)
     params = execution.params(params)
     cargs = v__electro_grid_cargs(params, execution)
     ret = v__electro_grid_outputs(params, execution)
@@ -202,6 +183,8 @@ def v__electro_grid(
     runner: Runner | None = None,
 ) -> VElectroGridOutputs:
     """
+    @ElectroGrid
+    
     Creates a mesh representation of an electrode grid for use with SUMA.
     
     Author: AFNI Developers
@@ -222,8 +205,6 @@ def v__electro_grid(
     Returns:
         NamedTuple of outputs (described in `VElectroGridOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__ELECTRO_GRID_METADATA)
     params = v__electro_grid_params(
         strip=strip,
         grid=grid,
@@ -232,13 +213,13 @@ def v__electro_grid(
         with_markers=with_markers,
         echo=echo,
     )
-    return v__electro_grid_execute(params, execution)
+    return v__electro_grid_execute(params, runner)
 
 
 __all__ = [
     "VElectroGridOutputs",
-    "VElectroGridParameters",
     "V__ELECTRO_GRID_METADATA",
     "v__electro_grid",
+    "v__electro_grid_execute",
     "v__electro_grid_params",
 ]

niwrap_afni/afni/v__examine_gen_feat_dists.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__EXAMINE_GEN_FEAT_DISTS_METADATA = Metadata(
-    id="4760e5b0736b09b09bbfea2061b56fd6ac5a0f99.boutiques",
+    id="79b05ad4b7f4474e74b6c73890296644948275bd.boutiques",
     name="@ExamineGenFeatDists",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,7 +14,19 @@ V__EXAMINE_GEN_FEAT_DISTS_METADATA = Metadata(
 
 
 VExamineGenFeatDistsParameters = typing.TypedDict('VExamineGenFeatDistsParameters', {
-    "__STYXTYPE__": typing.Literal["@ExamineGenFeatDists"],
+    "@type": typing.NotRequired[typing.Literal["afni/@ExamineGenFeatDists"]],
+    "features_dir": str,
+    "wildcards": typing.NotRequired[list[str] | None],
+    "output_suffix": typing.NotRequired[str | None],
+    "exclude_features": typing.NotRequired[list[str] | None],
+    "exclude_classes": typing.NotRequired[list[str] | None],
+    "output_dir": typing.NotRequired[str | None],
+    "panels_horizontal": typing.NotRequired[float | None],
+    "echo": bool,
+    "help": bool,
+})
+VExamineGenFeatDistsParametersTagged = typing.TypedDict('VExamineGenFeatDistsParametersTagged', {
+    "@type": typing.Literal["afni/@ExamineGenFeatDists"],
     "features_dir": str,
     "wildcards": typing.NotRequired[list[str] | None],
     "output_suffix": typing.NotRequired[str | None],
@@ -25,42 +37,11 @@ VExamineGenFeatDistsParameters = typing.TypedDict('VExamineGenFeatDistsParameter
     "echo": bool,
     "help": bool,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "@ExamineGenFeatDists": v__examine_gen_feat_dists_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 VExamineGenFeatDistsOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__examine_gen_feat_dists(...)`.
+    Output object returned when calling `VExamineGenFeatDistsParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -76,7 +57,7 @@ def v__examine_gen_feat_dists_params(
     panels_horizontal: float | None = None,
     echo: bool = False,
     help_: bool = False,
-) -> VExamineGenFeatDistsParameters:
+) -> VExamineGenFeatDistsParametersTagged:
     """
     Build parameters.
     
@@ -97,7 +78,7 @@ def v__examine_gen_feat_dists_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@ExamineGenFeatDists",
+        "@type": "afni/@ExamineGenFeatDists",
         "features_dir": features_dir,
         "echo": echo,
         "help": help_,
@@ -134,41 +115,41 @@ def v__examine_gen_feat_dists_cargs(
     cargs.append("@ExamineGenFeatDists")
     cargs.extend([
         "-fdir",
-        params.get("features_dir")
+        params.get("features_dir", None)
     ])
-    if params.get("wildcards") is not None:
+    if params.get("wildcards", None) is not None:
         cargs.extend([
             "-fwild",
-            *params.get("wildcards")
+            *params.get("wildcards", None)
         ])
-    if params.get("output_suffix") is not None:
+    if params.get("output_suffix", None) is not None:
         cargs.extend([
             "-suffix",
-            params.get("output_suffix")
+            params.get("output_suffix", None)
         ])
-    if params.get("exclude_features") is not None:
+    if params.get("exclude_features", None) is not None:
         cargs.extend([
             "-exfeat",
-            *params.get("exclude_features")
+            *params.get("exclude_features", None)
         ])
-    if params.get("exclude_classes") is not None:
+    if params.get("exclude_classes", None) is not None:
         cargs.extend([
             "-exclass",
-            *params.get("exclude_classes")
+            *params.get("exclude_classes", None)
         ])
-    if params.get("output_dir") is not None:
+    if params.get("output_dir", None) is not None:
         cargs.extend([
             "-odir",
-            params.get("output_dir")
+            params.get("output_dir", None)
         ])
-    if params.get("panels_horizontal") is not None:
+    if params.get("panels_horizontal", None) is not None:
         cargs.extend([
             "-nx",
-            str(params.get("panels_horizontal"))
+            str(params.get("panels_horizontal", None))
         ])
-    if params.get("echo"):
+    if params.get("echo", False):
         cargs.append("-echo")
-    if params.get("help"):
+    if params.get("help", False):
         cargs.append("-help")
     return cargs
 
@@ -194,9 +175,11 @@ def v__examine_gen_feat_dists_outputs(
 
 def v__examine_gen_feat_dists_execute(
     params: VExamineGenFeatDistsParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VExamineGenFeatDistsOutputs:
     """
+    @ExamineGenFeatDists
+    
     Examine histograms produced by 3dGenFeatDists.
     
     Author: AFNI Developers
@@ -205,10 +188,12 @@ def v__examine_gen_feat_dists_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VExamineGenFeatDistsOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__EXAMINE_GEN_FEAT_DISTS_METADATA)
     params = execution.params(params)
     cargs = v__examine_gen_feat_dists_cargs(params, execution)
     ret = v__examine_gen_feat_dists_outputs(params, execution)
@@ -229,6 +214,8 @@ def v__examine_gen_feat_dists(
     runner: Runner | None = None,
 ) -> VExamineGenFeatDistsOutputs:
     """
+    @ExamineGenFeatDists
+    
     Examine histograms produced by 3dGenFeatDists.
     
     Author: AFNI Developers
@@ -252,8 +239,6 @@ def v__examine_gen_feat_dists(
     Returns:
         NamedTuple of outputs (described in `VExamineGenFeatDistsOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__EXAMINE_GEN_FEAT_DISTS_METADATA)
     params = v__examine_gen_feat_dists_params(
         features_dir=features_dir,
         wildcards=wildcards,
@@ -265,13 +250,13 @@ def v__examine_gen_feat_dists(
         echo=echo,
         help_=help_,
     )
-    return v__examine_gen_feat_dists_execute(params, execution)
+    return v__examine_gen_feat_dists_execute(params, runner)
 
 
 __all__ = [
     "VExamineGenFeatDistsOutputs",
-    "VExamineGenFeatDistsParameters",
     "V__EXAMINE_GEN_FEAT_DISTS_METADATA",
     "v__examine_gen_feat_dists",
+    "v__examine_gen_feat_dists_execute",
     "v__examine_gen_feat_dists_params",
 ]

niwrap_afni/afni/v__extract_meica_ortvec.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__EXTRACT_MEICA_ORTVEC_METADATA = Metadata(
-    id="af2a42cd65df6cf5f7af9bf797cce1dbd022d517.boutiques",
+    id="da5f1030bf9c84763550e9e84494bbc71d833fbd.boutiques",
     name="@extract_meica_ortvec",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,7 +14,16 @@ V__EXTRACT_MEICA_ORTVEC_METADATA = Metadata(
 
 
 VExtractMeicaOrtvecParameters = typing.TypedDict('VExtractMeicaOrtvecParameters', {
-    "__STYXTYPE__": typing.Literal["@extract_meica_ortvec"],
+    "@type": typing.NotRequired[typing.Literal["afni/@extract_meica_ortvec"]],
+    "prefix": str,
+    "meica_dir": typing.NotRequired[str | None],
+    "reject_ignored": typing.NotRequired[int | None],
+    "reject_midk": typing.NotRequired[int | None],
+    "work_dir": typing.NotRequired[str | None],
+    "verbosity": typing.NotRequired[str | None],
+})
+VExtractMeicaOrtvecParametersTagged = typing.TypedDict('VExtractMeicaOrtvecParametersTagged', {
+    "@type": typing.Literal["afni/@extract_meica_ortvec"],
     "prefix": str,
     "meica_dir": typing.NotRequired[str | None],
     "reject_ignored": typing.NotRequired[int | None],
@@ -22,43 +31,11 @@ VExtractMeicaOrtvecParameters = typing.TypedDict('VExtractMeicaOrtvecParameters'
     "work_dir": typing.NotRequired[str | None],
     "verbosity": 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 {
-        "@extract_meica_ortvec": v__extract_meica_ortvec_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 {
-        "@extract_meica_ortvec": v__extract_meica_ortvec_outputs,
-    }.get(t)
 
 
 class VExtractMeicaOrtvecOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__extract_meica_ortvec(...)`.
+    Output object returned when calling `VExtractMeicaOrtvecParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -73,7 +50,7 @@ def v__extract_meica_ortvec_params(
     reject_midk: int | None = None,
     work_dir: str | None = None,
     verbosity: str | None = None,
-) -> VExtractMeicaOrtvecParameters:
+) -> VExtractMeicaOrtvecParametersTagged:
     """
     Build parameters.
     
@@ -90,7 +67,7 @@ def v__extract_meica_ortvec_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@extract_meica_ortvec",
+        "@type": "afni/@extract_meica_ortvec",
         "prefix": prefix,
     }
     if meica_dir is not None:
@@ -123,32 +100,32 @@ def v__extract_meica_ortvec_cargs(
     cargs.append("@extract_meica_ortvec")
     cargs.extend([
         "-prefix",
-        params.get("prefix")
+        params.get("prefix", None)
     ])
-    if params.get("meica_dir") is not None:
+    if params.get("meica_dir", None) is not None:
         cargs.extend([
             "-meica_dir",
-            params.get("meica_dir")
+            params.get("meica_dir", None)
         ])
-    if params.get("reject_ignored") is not None:
+    if params.get("reject_ignored", None) is not None:
         cargs.extend([
             "-reject_ignored",
-            str(params.get("reject_ignored"))
+            str(params.get("reject_ignored", None))
         ])
-    if params.get("reject_midk") is not None:
+    if params.get("reject_midk", None) is not None:
         cargs.extend([
             "-reject_midk",
-            str(params.get("reject_midk"))
+            str(params.get("reject_midk", None))
         ])
-    if params.get("work_dir") is not None:
+    if params.get("work_dir", None) is not None:
         cargs.extend([
             "-work_dir",
-            params.get("work_dir")
+            params.get("work_dir", None)
         ])
-    if params.get("verbosity") is not None:
+    if params.get("verbosity", None) is not None:
         cargs.extend([
             "-verb",
-            params.get("verbosity")
+            params.get("verbosity", None)
         ])
     return cargs
 
@@ -168,16 +145,18 @@ def v__extract_meica_ortvec_outputs(
     """
     ret = VExtractMeicaOrtvecOutputs(
         root=execution.output_file("."),
-        outfile=execution.output_file(params.get("prefix") + ".1D"),
+        outfile=execution.output_file(params.get("prefix", None) + ".1D"),
     )
     return ret
 
 
 def v__extract_meica_ortvec_execute(
     params: VExtractMeicaOrtvecParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VExtractMeicaOrtvecOutputs:
     """
+    @extract_meica_ortvec
+    
     Project good MEICA components out of bad ones.
     
     Author: AFNI Developers
@@ -186,10 +165,12 @@ def v__extract_meica_ortvec_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VExtractMeicaOrtvecOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__EXTRACT_MEICA_ORTVEC_METADATA)
     params = execution.params(params)
     cargs = v__extract_meica_ortvec_cargs(params, execution)
     ret = v__extract_meica_ortvec_outputs(params, execution)
@@ -207,6 +188,8 @@ def v__extract_meica_ortvec(
     runner: Runner | None = None,
 ) -> VExtractMeicaOrtvecOutputs:
     """
+    @extract_meica_ortvec
+    
     Project good MEICA components out of bad ones.
     
     Author: AFNI Developers
@@ -226,8 +209,6 @@ def v__extract_meica_ortvec(
     Returns:
         NamedTuple of outputs (described in `VExtractMeicaOrtvecOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__EXTRACT_MEICA_ORTVEC_METADATA)
     params = v__extract_meica_ortvec_params(
         prefix=prefix,
         meica_dir=meica_dir,
@@ -236,13 +217,13 @@ def v__extract_meica_ortvec(
         work_dir=work_dir,
         verbosity=verbosity,
     )
-    return v__extract_meica_ortvec_execute(params, execution)
+    return v__extract_meica_ortvec_execute(params, runner)
 
 
 __all__ = [
     "VExtractMeicaOrtvecOutputs",
-    "VExtractMeicaOrtvecParameters",
     "V__EXTRACT_MEICA_ORTVEC_METADATA",
     "v__extract_meica_ortvec",
+    "v__extract_meica_ortvec_execute",
     "v__extract_meica_ortvec_params",
 ]