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

niwrap_afni/afni/v__time_diff.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__TIME_DIFF_METADATA = Metadata(
-    id="7889ba0aeecc01a9a55b923b84e149e7cec9417e.boutiques",
+    id="7e8bc6e92b918a3b7096b6a3812790f55706dc50.boutiques",
     name="@TimeDiff",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,46 +14,20 @@ V__TIME_DIFF_METADATA = Metadata(
 
 
 VTimeDiffParameters = typing.TypedDict('VTimeDiffParameters', {
-    "__STYXTYPE__": typing.Literal["@TimeDiff"],
+    "@type": typing.NotRequired[typing.Literal["afni/@TimeDiff"]],
+    "file1": InputPathType,
+    "file2": InputPathType,
+})
+VTimeDiffParametersTagged = typing.TypedDict('VTimeDiffParametersTagged', {
+    "@type": typing.Literal["afni/@TimeDiff"],
     "file1": InputPathType,
     "file2": InputPathType,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "@TimeDiff": v__time_diff_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 VTimeDiffOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__time_diff(...)`.
+    Output object returned when calling `VTimeDiffParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -62,7 +36,7 @@ class VTimeDiffOutputs(typing.NamedTuple):
 def v__time_diff_params(
     file1: InputPathType,
     file2: InputPathType,
-) -> VTimeDiffParameters:
+) -> VTimeDiffParametersTagged:
     """
     Build parameters.
     
@@ -73,7 +47,7 @@ def v__time_diff_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@TimeDiff",
+        "@type": "afni/@TimeDiff",
         "file1": file1,
         "file2": file2,
     }
@@ -95,8 +69,8 @@ def v__time_diff_cargs(
     """
     cargs = []
     cargs.append("@TimeDiff")
-    cargs.append(execution.input_file(params.get("file1")))
-    cargs.append(execution.input_file(params.get("file2")))
+    cargs.append(execution.input_file(params.get("file1", None)))
+    cargs.append(execution.input_file(params.get("file2", None)))
     return cargs
 
 
@@ -121,9 +95,11 @@ def v__time_diff_outputs(
 
 def v__time_diff_execute(
     params: VTimeDiffParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VTimeDiffOutputs:
     """
+    @TimeDiff
+    
     A tool to compare the modification times of two files.
     
     Author: AFNI Developers
@@ -132,10 +108,12 @@ def v__time_diff_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VTimeDiffOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__TIME_DIFF_METADATA)
     params = execution.params(params)
     cargs = v__time_diff_cargs(params, execution)
     ret = v__time_diff_outputs(params, execution)
@@ -149,6 +127,8 @@ def v__time_diff(
     runner: Runner | None = None,
 ) -> VTimeDiffOutputs:
     """
+    @TimeDiff
+    
     A tool to compare the modification times of two files.
     
     Author: AFNI Developers
@@ -162,19 +142,17 @@ def v__time_diff(
     Returns:
         NamedTuple of outputs (described in `VTimeDiffOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__TIME_DIFF_METADATA)
     params = v__time_diff_params(
         file1=file1,
         file2=file2,
     )
-    return v__time_diff_execute(params, execution)
+    return v__time_diff_execute(params, runner)
 
 
 __all__ = [
     "VTimeDiffOutputs",
-    "VTimeDiffParameters",
     "V__TIME_DIFF_METADATA",
     "v__time_diff",
+    "v__time_diff_execute",
     "v__time_diff_params",
 ]

niwrap_afni/afni/v__to_mni_awarp.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__TO_MNI_AWARP_METADATA = Metadata(
-    id="5722ec583831094797b5958cc720dc57c1f944a2.boutiques",
+    id="b6d7b0fa8121b6538d215cd65437e4218af3eeba.boutiques",
     name="@toMNI_Awarp",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,58 +14,29 @@ V__TO_MNI_AWARP_METADATA = Metadata(
 
 
 VToMniAwarpParameters = typing.TypedDict('VToMniAwarpParameters', {
-    "__STYXTYPE__": typing.Literal["@toMNI_Awarp"],
+    "@type": typing.NotRequired[typing.Literal["afni/@toMNI_Awarp"]],
+    "directory": str,
+    "datasets": list[InputPathType],
+})
+VToMniAwarpParametersTagged = typing.TypedDict('VToMniAwarpParametersTagged', {
+    "@type": typing.Literal["afni/@toMNI_Awarp"],
     "directory": str,
     "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 {
-        "@toMNI_Awarp": v__to_mni_awarp_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 {
-        "@toMNI_Awarp": v__to_mni_awarp_outputs,
-    }.get(t)
 
 
 class VToMniAwarpOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__to_mni_awarp(...)`.
+    Output object returned when calling `VToMniAwarpParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
-    output_datasets: OutputPathType
-    """The transformed datasets in 1x1x1 mm MNI space."""
 
 
 def v__to_mni_awarp_params(
     directory: str,
     datasets: list[InputPathType],
-) -> VToMniAwarpParameters:
+) -> VToMniAwarpParametersTagged:
     """
     Build parameters.
     
@@ -77,7 +48,7 @@ def v__to_mni_awarp_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@toMNI_Awarp",
+        "@type": "afni/@toMNI_Awarp",
         "directory": directory,
         "datasets": datasets,
     }
@@ -99,8 +70,8 @@ def v__to_mni_awarp_cargs(
     """
     cargs = []
     cargs.append("@toMNI_Awarp")
-    cargs.append(params.get("directory"))
-    cargs.extend([execution.input_file(f) for f in params.get("datasets")])
+    cargs.append(params.get("directory", None))
+    cargs.extend([execution.input_file(f) for f in params.get("datasets", None)])
     return cargs
 
 
@@ -119,16 +90,17 @@ def v__to_mni_awarp_outputs(
     """
     ret = VToMniAwarpOutputs(
         root=execution.output_file("."),
-        output_datasets=execution.output_file(params.get("directory") + "/*"),
     )
     return ret
 
 
 def v__to_mni_awarp_execute(
     params: VToMniAwarpParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VToMniAwarpOutputs:
     """
+    @toMNI_Awarp
+    
     Transforms skull-stripped datasets to 1x1x1 mm MNI space using an affine
     transformation.
     
@@ -138,10 +110,12 @@ def v__to_mni_awarp_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VToMniAwarpOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__TO_MNI_AWARP_METADATA)
     params = execution.params(params)
     cargs = v__to_mni_awarp_cargs(params, execution)
     ret = v__to_mni_awarp_outputs(params, execution)
@@ -155,6 +129,8 @@ def v__to_mni_awarp(
     runner: Runner | None = None,
 ) -> VToMniAwarpOutputs:
     """
+    @toMNI_Awarp
+    
     Transforms skull-stripped datasets to 1x1x1 mm MNI space using an affine
     transformation.
     
@@ -170,19 +146,17 @@ def v__to_mni_awarp(
     Returns:
         NamedTuple of outputs (described in `VToMniAwarpOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__TO_MNI_AWARP_METADATA)
     params = v__to_mni_awarp_params(
         directory=directory,
         datasets=datasets,
     )
-    return v__to_mni_awarp_execute(params, execution)
+    return v__to_mni_awarp_execute(params, runner)
 
 
 __all__ = [
     "VToMniAwarpOutputs",
-    "VToMniAwarpParameters",
     "V__TO_MNI_AWARP_METADATA",
     "v__to_mni_awarp",
+    "v__to_mni_awarp_execute",
     "v__to_mni_awarp_params",
 ]

niwrap_afni/afni/v__to_mni_qwarpar.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__TO_MNI_QWARPAR_METADATA = Metadata(
-    id="d56ea262996a4cde8c195ff538d38d88a827a2b1.boutiques",
+    id="1ce3dc3cb10706fa779cd607ed5bb0e310f90806.boutiques",
     name="@toMNI_Qwarpar",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,47 +14,20 @@ V__TO_MNI_QWARPAR_METADATA = Metadata(
 
 
 VToMniQwarparParameters = typing.TypedDict('VToMniQwarparParameters', {
-    "__STYXTYPE__": typing.Literal["@toMNI_Qwarpar"],
+    "@type": typing.NotRequired[typing.Literal["afni/@toMNI_Qwarpar"]],
+    "numcpu": float,
+    "numjob": float,
+})
+VToMniQwarparParametersTagged = typing.TypedDict('VToMniQwarparParametersTagged', {
+    "@type": typing.Literal["afni/@toMNI_Qwarpar"],
     "numcpu": float,
     "numjob": float,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "@toMNI_Qwarpar": v__to_mni_qwarpar_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 {
-        "@toMNI_Qwarpar": v__to_mni_qwarpar_outputs,
-    }.get(t)
 
 
 class VToMniQwarparOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__to_mni_qwarpar(...)`.
+    Output object returned when calling `VToMniQwarparParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -65,7 +38,7 @@ class VToMniQwarparOutputs(typing.NamedTuple):
 def v__to_mni_qwarpar_params(
     numcpu: float,
     numjob: float,
-) -> VToMniQwarparParameters:
+) -> VToMniQwarparParametersTagged:
     """
     Build parameters.
     
@@ -78,7 +51,7 @@ def v__to_mni_qwarpar_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@toMNI_Qwarpar",
+        "@type": "afni/@toMNI_Qwarpar",
         "numcpu": numcpu,
         "numjob": numjob,
     }
@@ -100,8 +73,8 @@ def v__to_mni_qwarpar_cargs(
     """
     cargs = []
     cargs.append("@toMNI_Qwarpar")
-    cargs.append(str(params.get("numcpu")))
-    cargs.append(str(params.get("numjob")))
+    cargs.append(str(params.get("numcpu", None)))
+    cargs.append(str(params.get("numjob", None)))
     return cargs
 
 
@@ -120,16 +93,18 @@ def v__to_mni_qwarpar_outputs(
     """
     ret = VToMniQwarparOutputs(
         root=execution.output_file("."),
-        output_file=execution.output_file("*_uni+tlrc.HEAD"),
+        output_file=execution.output_file("uni+tlrc.HEAD"),
     )
     return ret
 
 
 def v__to_mni_qwarpar_execute(
     params: VToMniQwarparParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VToMniQwarparOutputs:
     """
+    @toMNI_Qwarpar
+    
     Transforms datasets to MNI space, then collectively re-transforms them to
     produce a refined average.
     
@@ -139,10 +114,12 @@ def v__to_mni_qwarpar_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VToMniQwarparOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__TO_MNI_QWARPAR_METADATA)
     params = execution.params(params)
     cargs = v__to_mni_qwarpar_cargs(params, execution)
     ret = v__to_mni_qwarpar_outputs(params, execution)
@@ -156,6 +133,8 @@ def v__to_mni_qwarpar(
     runner: Runner | None = None,
 ) -> VToMniQwarparOutputs:
     """
+    @toMNI_Qwarpar
+    
     Transforms datasets to MNI space, then collectively re-transforms them to
     produce a refined average.
     
@@ -172,19 +151,17 @@ def v__to_mni_qwarpar(
     Returns:
         NamedTuple of outputs (described in `VToMniQwarparOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__TO_MNI_QWARPAR_METADATA)
     params = v__to_mni_qwarpar_params(
         numcpu=numcpu,
         numjob=numjob,
     )
-    return v__to_mni_qwarpar_execute(params, execution)
+    return v__to_mni_qwarpar_execute(params, runner)
 
 
 __all__ = [
     "VToMniQwarparOutputs",
-    "VToMniQwarparParameters",
     "V__TO_MNI_QWARPAR_METADATA",
     "v__to_mni_qwarpar",
+    "v__to_mni_qwarpar_execute",
     "v__to_mni_qwarpar_params",
 ]

niwrap_afni/afni/v__to_rai.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__TO_RAI_METADATA = Metadata(
-    id="8c60899686c3401d179992be9780ca970e04a901.boutiques",
+    id="024583cd57fcfddfb771a0c795047e59fba1411f.boutiques",
     name="@ToRAI",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,46 +14,20 @@ V__TO_RAI_METADATA = Metadata(
 
 
 VToRaiParameters = typing.TypedDict('VToRaiParameters', {
-    "__STYXTYPE__": typing.Literal["@ToRAI"],
+    "@type": typing.NotRequired[typing.Literal["afni/@ToRAI"]],
+    "coordinates": list[float],
+    "orientation": str,
+})
+VToRaiParametersTagged = typing.TypedDict('VToRaiParametersTagged', {
+    "@type": typing.Literal["afni/@ToRAI"],
     "coordinates": list[float],
     "orientation": str,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "@ToRAI": v__to_rai_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 VToRaiOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__to_rai(...)`.
+    Output object returned when calling `VToRaiParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -62,7 +36,7 @@ class VToRaiOutputs(typing.NamedTuple):
 def v__to_rai_params(
     coordinates: list[float],
     orientation: str,
-) -> VToRaiParameters:
+) -> VToRaiParametersTagged:
     """
     Build parameters.
     
@@ -73,7 +47,7 @@ def v__to_rai_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@ToRAI",
+        "@type": "afni/@ToRAI",
         "coordinates": coordinates,
         "orientation": orientation,
     }
@@ -97,11 +71,11 @@ def v__to_rai_cargs(
     cargs.append("@ToRAI")
     cargs.extend([
         "-xyz",
-        *map(str, params.get("coordinates"))
+        *map(str, params.get("coordinates", None))
     ])
     cargs.extend([
         "-or",
-        params.get("orientation")
+        params.get("orientation", None)
     ])
     return cargs
 
@@ -127,9 +101,11 @@ def v__to_rai_outputs(
 
 def v__to_rai_execute(
     params: VToRaiParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VToRaiOutputs:
     """
+    @ToRAI
+    
     Tool to change the ORIENT coordinates to RAI.
     
     Author: AFNI Developers
@@ -138,10 +114,12 @@ def v__to_rai_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VToRaiOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__TO_RAI_METADATA)
     params = execution.params(params)
     cargs = v__to_rai_cargs(params, execution)
     ret = v__to_rai_outputs(params, execution)
@@ -155,6 +133,8 @@ def v__to_rai(
     runner: Runner | None = None,
 ) -> VToRaiOutputs:
     """
+    @ToRAI
+    
     Tool to change the ORIENT coordinates to RAI.
     
     Author: AFNI Developers
@@ -168,19 +148,17 @@ def v__to_rai(
     Returns:
         NamedTuple of outputs (described in `VToRaiOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__TO_RAI_METADATA)
     params = v__to_rai_params(
         coordinates=coordinates,
         orientation=orientation,
     )
-    return v__to_rai_execute(params, execution)
+    return v__to_rai_execute(params, runner)
 
 
 __all__ = [
     "VToRaiOutputs",
-    "VToRaiParameters",
     "V__TO_RAI_METADATA",
     "v__to_rai",
+    "v__to_rai_execute",
     "v__to_rai_params",
 ]