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

niwrap_afni/afni/v__fslabel2dset.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__FSLABEL2DSET_METADATA = Metadata(
-    id="120b018177e0387cb99f55149df8a35aeb5f323d.boutiques",
+    id="4ee1b6c7aa619b76203fc0c2ee4f0f2da723c81d.boutiques",
     name="@FSlabel2dset",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,49 +14,26 @@ V__FSLABEL2DSET_METADATA = Metadata(
 
 
 VFslabel2dsetParameters = typing.TypedDict('VFslabel2dsetParameters', {
-    "__STYXTYPE__": typing.Literal["@FSlabel2dset"],
+    "@type": typing.NotRequired[typing.Literal["afni/@FSlabel2dset"]],
+    "fs_label_file": InputPathType,
+    "val": typing.NotRequired[float | None],
+    "help": bool,
+    "echo": bool,
+    "keep_tmp": bool,
+})
+VFslabel2dsetParametersTagged = typing.TypedDict('VFslabel2dsetParametersTagged', {
+    "@type": typing.Literal["afni/@FSlabel2dset"],
     "fs_label_file": InputPathType,
     "val": typing.NotRequired[float | None],
     "help": bool,
     "echo": bool,
     "keep_tmp": bool,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "@FSlabel2dset": v__fslabel2dset_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 VFslabel2dsetOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__fslabel2dset(...)`.
+    Output object returned when calling `VFslabel2dsetParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -68,7 +45,7 @@ def v__fslabel2dset_params(
     help_: bool = False,
     echo: bool = False,
     keep_tmp: bool = False,
-) -> VFslabel2dsetParameters:
+) -> VFslabel2dsetParametersTagged:
     """
     Build parameters.
     
@@ -82,7 +59,7 @@ def v__fslabel2dset_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@FSlabel2dset",
+        "@type": "afni/@FSlabel2dset",
         "fs_label_file": fs_label_file,
         "help": help_,
         "echo": echo,
@@ -110,18 +87,18 @@ def v__fslabel2dset_cargs(
     cargs.append("@FSlabel2dset")
     cargs.extend([
         "-fs",
-        execution.input_file(params.get("fs_label_file"))
+        execution.input_file(params.get("fs_label_file", None))
     ])
-    if params.get("val") is not None:
+    if params.get("val", None) is not None:
         cargs.extend([
             "-val",
-            str(params.get("val"))
+            str(params.get("val", None))
         ])
-    if params.get("help"):
+    if params.get("help", False):
         cargs.append("-help")
-    if params.get("echo"):
+    if params.get("echo", False):
         cargs.append("-echo")
-    if params.get("keep_tmp"):
+    if params.get("keep_tmp", False):
         cargs.append("-keep_tmp")
     return cargs
 
@@ -147,11 +124,13 @@ def v__fslabel2dset_outputs(
 
 def v__fslabel2dset_execute(
     params: VFslabel2dsetParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VFslabel2dsetOutputs:
     """
-    A script to convert a FreeSurfer ASCII label file into a SUMA dataset and a SUMA
-    ROI.
+    @FSlabel2dset
+    
+    A script to convert a FreeSurfer ASCII label file into a SUMA dataset and a
+    SUMA ROI.
     
     Author: AFNI Developers
     
@@ -159,10 +138,12 @@ def v__fslabel2dset_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VFslabel2dsetOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__FSLABEL2DSET_METADATA)
     params = execution.params(params)
     cargs = v__fslabel2dset_cargs(params, execution)
     ret = v__fslabel2dset_outputs(params, execution)
@@ -179,8 +160,10 @@ def v__fslabel2dset(
     runner: Runner | None = None,
 ) -> VFslabel2dsetOutputs:
     """
-    A script to convert a FreeSurfer ASCII label file into a SUMA dataset and a SUMA
-    ROI.
+    @FSlabel2dset
+    
+    A script to convert a FreeSurfer ASCII label file into a SUMA dataset and a
+    SUMA ROI.
     
     Author: AFNI Developers
     
@@ -196,8 +179,6 @@ def v__fslabel2dset(
     Returns:
         NamedTuple of outputs (described in `VFslabel2dsetOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__FSLABEL2DSET_METADATA)
     params = v__fslabel2dset_params(
         fs_label_file=fs_label_file,
         val=val,
@@ -205,13 +186,13 @@ def v__fslabel2dset(
         echo=echo,
         keep_tmp=keep_tmp,
     )
-    return v__fslabel2dset_execute(params, execution)
+    return v__fslabel2dset_execute(params, runner)
 
 
 __all__ = [
     "VFslabel2dsetOutputs",
-    "VFslabel2dsetParameters",
     "V__FSLABEL2DSET_METADATA",
     "v__fslabel2dset",
+    "v__fslabel2dset_execute",
     "v__fslabel2dset_params",
 ]

niwrap_afni/afni/v__get_afni_dims.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__GET_AFNI_DIMS_METADATA = Metadata(
-    id="79e1fb9221be43e2a30199228c1691b4a01fb471.boutiques",
+    id="5be17e05d89db2378724c321df4c193a4d74ee28.boutiques",
     name="@GetAfniDims",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,46 +14,18 @@ V__GET_AFNI_DIMS_METADATA = Metadata(
 
 
 VGetAfniDimsParameters = typing.TypedDict('VGetAfniDimsParameters', {
-    "__STYXTYPE__": typing.Literal["@GetAfniDims"],
+    "@type": typing.NotRequired[typing.Literal["afni/@GetAfniDims"]],
+    "input_dset": InputPathType,
+})
+VGetAfniDimsParametersTagged = typing.TypedDict('VGetAfniDimsParametersTagged', {
+    "@type": typing.Literal["afni/@GetAfniDims"],
     "input_dset": InputPathType,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "@GetAfniDims": v__get_afni_dims_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 {
-        "@GetAfniDims": v__get_afni_dims_outputs,
-    }.get(t)
 
 
 class VGetAfniDimsOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__get_afni_dims(...)`.
+    Output object returned when calling `VGetAfniDimsParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -63,7 +35,7 @@ class VGetAfniDimsOutputs(typing.NamedTuple):
 
 def v__get_afni_dims_params(
     input_dset: InputPathType,
-) -> VGetAfniDimsParameters:
+) -> VGetAfniDimsParametersTagged:
     """
     Build parameters.
     
@@ -73,7 +45,7 @@ def v__get_afni_dims_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@GetAfniDims",
+        "@type": "afni/@GetAfniDims",
         "input_dset": input_dset,
     }
     return params
@@ -94,7 +66,7 @@ def v__get_afni_dims_cargs(
     """
     cargs = []
     cargs.append("@GetAfniDims")
-    cargs.append(execution.input_file(params.get("input_dset")))
+    cargs.append(execution.input_file(params.get("input_dset", None)))
     return cargs
 
 
@@ -120,9 +92,11 @@ def v__get_afni_dims_outputs(
 
 def v__get_afni_dims_execute(
     params: VGetAfniDimsParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VGetAfniDimsOutputs:
     """
+    @GetAfniDims
+    
     A utility tool to return dimensions of AFNI dataset.
     
     Author: AFNI Developers
@@ -131,10 +105,12 @@ def v__get_afni_dims_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VGetAfniDimsOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__GET_AFNI_DIMS_METADATA)
     params = execution.params(params)
     cargs = v__get_afni_dims_cargs(params, execution)
     ret = v__get_afni_dims_outputs(params, execution)
@@ -147,6 +123,8 @@ def v__get_afni_dims(
     runner: Runner | None = None,
 ) -> VGetAfniDimsOutputs:
     """
+    @GetAfniDims
+    
     A utility tool to return dimensions of AFNI dataset.
     
     Author: AFNI Developers
@@ -159,18 +137,16 @@ def v__get_afni_dims(
     Returns:
         NamedTuple of outputs (described in `VGetAfniDimsOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__GET_AFNI_DIMS_METADATA)
     params = v__get_afni_dims_params(
         input_dset=input_dset,
     )
-    return v__get_afni_dims_execute(params, execution)
+    return v__get_afni_dims_execute(params, runner)
 
 
 __all__ = [
     "VGetAfniDimsOutputs",
-    "VGetAfniDimsParameters",
     "V__GET_AFNI_DIMS_METADATA",
     "v__get_afni_dims",
+    "v__get_afni_dims_execute",
     "v__get_afni_dims_params",
 ]

niwrap_afni/afni/v__get_afni_id.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__GET_AFNI_ID_METADATA = Metadata(
-    id="bf0b6ddb2e06fa70fd2d0608f37cdc065cc8bf73.boutiques",
+    id="50a1b87d350e86fa8e8ea67a942f00bb2641ad96.boutiques",
     name="@GetAfniID",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,46 +14,18 @@ V__GET_AFNI_ID_METADATA = Metadata(
 
 
 VGetAfniIdParameters = typing.TypedDict('VGetAfniIdParameters', {
-    "__STYXTYPE__": typing.Literal["@GetAfniID"],
+    "@type": typing.NotRequired[typing.Literal["afni/@GetAfniID"]],
+    "dset": InputPathType,
+})
+VGetAfniIdParametersTagged = typing.TypedDict('VGetAfniIdParametersTagged', {
+    "@type": typing.Literal["afni/@GetAfniID"],
     "dset": InputPathType,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "@GetAfniID": v__get_afni_id_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 {
-        "@GetAfniID": v__get_afni_id_outputs,
-    }.get(t)
 
 
 class VGetAfniIdOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__get_afni_id(...)`.
+    Output object returned when calling `VGetAfniIdParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -63,7 +35,7 @@ class VGetAfniIdOutputs(typing.NamedTuple):
 
 def v__get_afni_id_params(
     dset: InputPathType,
-) -> VGetAfniIdParameters:
+) -> VGetAfniIdParametersTagged:
     """
     Build parameters.
     
@@ -73,7 +45,7 @@ def v__get_afni_id_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@GetAfniID",
+        "@type": "afni/@GetAfniID",
         "dset": dset,
     }
     return params
@@ -94,7 +66,7 @@ def v__get_afni_id_cargs(
     """
     cargs = []
     cargs.append("@GetAfniID")
-    cargs.append(execution.input_file(params.get("dset")))
+    cargs.append(execution.input_file(params.get("dset", None)))
     return cargs
 
 
@@ -120,9 +92,11 @@ def v__get_afni_id_outputs(
 
 def v__get_afni_id_execute(
     params: VGetAfniIdParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VGetAfniIdOutputs:
     """
+    @GetAfniID
+    
     Returns the unique identifier of a dataset.
     
     Author: AFNI Developers
@@ -131,10 +105,12 @@ def v__get_afni_id_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VGetAfniIdOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__GET_AFNI_ID_METADATA)
     params = execution.params(params)
     cargs = v__get_afni_id_cargs(params, execution)
     ret = v__get_afni_id_outputs(params, execution)
@@ -147,6 +123,8 @@ def v__get_afni_id(
     runner: Runner | None = None,
 ) -> VGetAfniIdOutputs:
     """
+    @GetAfniID
+    
     Returns the unique identifier of a dataset.
     
     Author: AFNI Developers
@@ -159,18 +137,16 @@ def v__get_afni_id(
     Returns:
         NamedTuple of outputs (described in `VGetAfniIdOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__GET_AFNI_ID_METADATA)
     params = v__get_afni_id_params(
         dset=dset,
     )
-    return v__get_afni_id_execute(params, execution)
+    return v__get_afni_id_execute(params, runner)
 
 
 __all__ = [
     "VGetAfniIdOutputs",
-    "VGetAfniIdParameters",
     "V__GET_AFNI_ID_METADATA",
     "v__get_afni_id",
+    "v__get_afni_id_execute",
     "v__get_afni_id_params",
 ]

niwrap_afni/afni/v__get_afni_orient.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__GET_AFNI_ORIENT_METADATA = Metadata(
-    id="c762859f5f7c452b51a781a2d7fabbb5993939a9.boutiques",
+    id="918b4490cd27c9578336b43b6079765db775bef2.boutiques",
     name="@GetAfniOrient",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,47 +14,20 @@ V__GET_AFNI_ORIENT_METADATA = Metadata(
 
 
 VGetAfniOrientParameters = typing.TypedDict('VGetAfniOrientParameters', {
-    "__STYXTYPE__": typing.Literal["@GetAfniOrient"],
+    "@type": typing.NotRequired[typing.Literal["afni/@GetAfniOrient"]],
+    "exploratory": bool,
+    "infile": InputPathType,
+})
+VGetAfniOrientParametersTagged = typing.TypedDict('VGetAfniOrientParametersTagged', {
+    "@type": typing.Literal["afni/@GetAfniOrient"],
     "exploratory": bool,
     "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 {
-        "@GetAfniOrient": v__get_afni_orient_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 {
-        "@GetAfniOrient": v__get_afni_orient_outputs,
-    }.get(t)
 
 
 class VGetAfniOrientOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__get_afni_orient(...)`.
+    Output object returned when calling `VGetAfniOrientParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -65,7 +38,7 @@ class VGetAfniOrientOutputs(typing.NamedTuple):
 def v__get_afni_orient_params(
     infile: InputPathType,
     exploratory: bool = False,
-) -> VGetAfniOrientParameters:
+) -> VGetAfniOrientParametersTagged:
     """
     Build parameters.
     
@@ -76,7 +49,7 @@ def v__get_afni_orient_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@GetAfniOrient",
+        "@type": "afni/@GetAfniOrient",
         "exploratory": exploratory,
         "infile": infile,
     }
@@ -98,9 +71,9 @@ def v__get_afni_orient_cargs(
     """
     cargs = []
     cargs.append("@GetAfniOrient")
-    if params.get("exploratory"):
+    if params.get("exploratory", False):
         cargs.append("-exp")
-    cargs.append(execution.input_file(params.get("infile")))
+    cargs.append(execution.input_file(params.get("infile", None)))
     return cargs
 
 
@@ -119,16 +92,18 @@ def v__get_afni_orient_outputs(
     """
     ret = VGetAfniOrientOutputs(
         root=execution.output_file("."),
-        output_orient_code=execution.output_file(pathlib.Path(params.get("infile")).name + "_orient_code.txt"),
+        output_orient_code=execution.output_file(pathlib.Path(params.get("infile", None)).name + "_orient_code.txt"),
     )
     return ret
 
 
 def v__get_afni_orient_execute(
     params: VGetAfniOrientParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VGetAfniOrientOutputs:
     """
+    @GetAfniOrient
+    
     Returns the orient code of AFNI datasets.
     
     Author: AFNI Developers
@@ -137,10 +112,12 @@ def v__get_afni_orient_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VGetAfniOrientOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__GET_AFNI_ORIENT_METADATA)
     params = execution.params(params)
     cargs = v__get_afni_orient_cargs(params, execution)
     ret = v__get_afni_orient_outputs(params, execution)
@@ -154,6 +131,8 @@ def v__get_afni_orient(
     runner: Runner | None = None,
 ) -> VGetAfniOrientOutputs:
     """
+    @GetAfniOrient
+    
     Returns the orient code of AFNI datasets.
     
     Author: AFNI Developers
@@ -167,19 +146,17 @@ def v__get_afni_orient(
     Returns:
         NamedTuple of outputs (described in `VGetAfniOrientOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__GET_AFNI_ORIENT_METADATA)
     params = v__get_afni_orient_params(
         exploratory=exploratory,
         infile=infile,
     )
-    return v__get_afni_orient_execute(params, execution)
+    return v__get_afni_orient_execute(params, runner)
 
 
 __all__ = [
     "VGetAfniOrientOutputs",
-    "VGetAfniOrientParameters",
     "V__GET_AFNI_ORIENT_METADATA",
     "v__get_afni_orient",
+    "v__get_afni_orient_execute",
     "v__get_afni_orient_params",
 ]