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

niwrap_freesurfer/freesurfer/sphere_subject_lh.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 SPHERE_SUBJECT_LH_METADATA = Metadata(
-    id="ff268b28a43fc5b537953764154fa43ebab2c033.boutiques",
+    id="428035e4e89c94b9f57f1bd2c8bf7fba3885bfa2.boutiques",
     name="sphere_subject-lh",
     package="freesurfer",
     container_image_tag="freesurfer/freesurfer:7.4.1",
@@ -14,45 +14,18 @@ SPHERE_SUBJECT_LH_METADATA = Metadata(
 
 
 SphereSubjectLhParameters = typing.TypedDict('SphereSubjectLhParameters', {
-    "__STYXTYPE__": typing.Literal["sphere_subject-lh"],
+    "@type": typing.NotRequired[typing.Literal["freesurfer/sphere_subject-lh"]],
+    "license_file": InputPathType,
+})
+SphereSubjectLhParametersTagged = typing.TypedDict('SphereSubjectLhParametersTagged', {
+    "@type": typing.Literal["freesurfer/sphere_subject-lh"],
     "license_file": InputPathType,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "sphere_subject-lh": sphere_subject_lh_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 SphereSubjectLhOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `sphere_subject_lh(...)`.
+    Output object returned when calling `SphereSubjectLhParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -60,7 +33,7 @@ class SphereSubjectLhOutputs(typing.NamedTuple):
 
 def sphere_subject_lh_params(
     license_file: InputPathType,
-) -> SphereSubjectLhParameters:
+) -> SphereSubjectLhParametersTagged:
     """
     Build parameters.
     
@@ -70,7 +43,7 @@ def sphere_subject_lh_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "sphere_subject-lh",
+        "@type": "freesurfer/sphere_subject-lh",
         "license_file": license_file,
     }
     return params
@@ -93,7 +66,7 @@ def sphere_subject_lh_cargs(
     cargs.append("sphere_subject-lh")
     cargs.extend([
         "-lh",
-        execution.input_file(params.get("license_file"))
+        execution.input_file(params.get("license_file", None))
     ])
     return cargs
 
@@ -119,9 +92,11 @@ def sphere_subject_lh_outputs(
 
 def sphere_subject_lh_execute(
     params: SphereSubjectLhParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> SphereSubjectLhOutputs:
     """
+    sphere_subject-lh
+    
     Tool for processing spherical representations in FreeSurfer.
     
     Author: FreeSurfer Developers
@@ -130,10 +105,12 @@ def sphere_subject_lh_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `SphereSubjectLhOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(SPHERE_SUBJECT_LH_METADATA)
     params = execution.params(params)
     cargs = sphere_subject_lh_cargs(params, execution)
     ret = sphere_subject_lh_outputs(params, execution)
@@ -146,6 +123,8 @@ def sphere_subject_lh(
     runner: Runner | None = None,
 ) -> SphereSubjectLhOutputs:
     """
+    sphere_subject-lh
+    
     Tool for processing spherical representations in FreeSurfer.
     
     Author: FreeSurfer Developers
@@ -158,18 +137,16 @@ def sphere_subject_lh(
     Returns:
         NamedTuple of outputs (described in `SphereSubjectLhOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(SPHERE_SUBJECT_LH_METADATA)
     params = sphere_subject_lh_params(
         license_file=license_file,
     )
-    return sphere_subject_lh_execute(params, execution)
+    return sphere_subject_lh_execute(params, runner)
 
 
 __all__ = [
     "SPHERE_SUBJECT_LH_METADATA",
     "SphereSubjectLhOutputs",
-    "SphereSubjectLhParameters",
     "sphere_subject_lh",
+    "sphere_subject_lh_execute",
     "sphere_subject_lh_params",
 ]

niwrap_freesurfer/freesurfer/sphere_subject_rh.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 SPHERE_SUBJECT_RH_METADATA = Metadata(
-    id="3f5f7069b0a16e269b65f3d28ad8762b4bb84b90.boutiques",
+    id="640229d9184c505707b191c9861151b0d6328682.boutiques",
     name="sphere_subject-rh",
     package="freesurfer",
     container_image_tag="freesurfer/freesurfer:7.4.1",
@@ -14,45 +14,18 @@ SPHERE_SUBJECT_RH_METADATA = Metadata(
 
 
 SphereSubjectRhParameters = typing.TypedDict('SphereSubjectRhParameters', {
-    "__STYXTYPE__": typing.Literal["sphere_subject-rh"],
+    "@type": typing.NotRequired[typing.Literal["freesurfer/sphere_subject-rh"]],
+    "license_file": InputPathType,
+})
+SphereSubjectRhParametersTagged = typing.TypedDict('SphereSubjectRhParametersTagged', {
+    "@type": typing.Literal["freesurfer/sphere_subject-rh"],
     "license_file": InputPathType,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "sphere_subject-rh": sphere_subject_rh_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 SphereSubjectRhOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `sphere_subject_rh(...)`.
+    Output object returned when calling `SphereSubjectRhParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -60,7 +33,7 @@ class SphereSubjectRhOutputs(typing.NamedTuple):
 
 def sphere_subject_rh_params(
     license_file: InputPathType,
-) -> SphereSubjectRhParameters:
+) -> SphereSubjectRhParametersTagged:
     """
     Build parameters.
     
@@ -71,7 +44,7 @@ def sphere_subject_rh_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "sphere_subject-rh",
+        "@type": "freesurfer/sphere_subject-rh",
         "license_file": license_file,
     }
     return params
@@ -94,7 +67,7 @@ def sphere_subject_rh_cargs(
     cargs.append("sphere_subject-rh")
     cargs.extend([
         "-rh",
-        execution.input_file(params.get("license_file"))
+        execution.input_file(params.get("license_file", None))
     ])
     return cargs
 
@@ -120,9 +93,11 @@ def sphere_subject_rh_outputs(
 
 def sphere_subject_rh_execute(
     params: SphereSubjectRhParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> SphereSubjectRhOutputs:
     """
+    sphere_subject-rh
+    
     Sphere Subject RH tool for FreeSurfer, requires valid license.
     
     Author: FreeSurfer Developers
@@ -131,10 +106,12 @@ def sphere_subject_rh_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `SphereSubjectRhOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(SPHERE_SUBJECT_RH_METADATA)
     params = execution.params(params)
     cargs = sphere_subject_rh_cargs(params, execution)
     ret = sphere_subject_rh_outputs(params, execution)
@@ -147,6 +124,8 @@ def sphere_subject_rh(
     runner: Runner | None = None,
 ) -> SphereSubjectRhOutputs:
     """
+    sphere_subject-rh
+    
     Sphere Subject RH tool for FreeSurfer, requires valid license.
     
     Author: FreeSurfer Developers
@@ -160,18 +139,16 @@ def sphere_subject_rh(
     Returns:
         NamedTuple of outputs (described in `SphereSubjectRhOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(SPHERE_SUBJECT_RH_METADATA)
     params = sphere_subject_rh_params(
         license_file=license_file,
     )
-    return sphere_subject_rh_execute(params, execution)
+    return sphere_subject_rh_execute(params, runner)
 
 
 __all__ = [
     "SPHERE_SUBJECT_RH_METADATA",
     "SphereSubjectRhOutputs",
-    "SphereSubjectRhParameters",
     "sphere_subject_rh",
+    "sphere_subject_rh_execute",
     "sphere_subject_rh_params",
 ]

niwrap_freesurfer/freesurfer/spline3_test.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 SPLINE3_TEST_METADATA = Metadata(
-    id="9ccbc9f138b1998a711b2f181ada2004afbb26fb.boutiques",
+    id="b6736dedb2a1a615decf03f5044e961689f145ae.boutiques",
     name="Spline3_test",
     package="freesurfer",
     container_image_tag="freesurfer/freesurfer:7.4.1",
@@ -14,48 +14,22 @@ SPLINE3_TEST_METADATA = Metadata(
 
 
 Spline3TestParameters = typing.TypedDict('Spline3TestParameters', {
-    "__STYXTYPE__": typing.Literal["Spline3_test"],
+    "@type": typing.NotRequired[typing.Literal["freesurfer/Spline3_test"]],
+    "x_values": list[float],
+    "y_values": list[float],
+    "x_new_values": list[float],
+})
+Spline3TestParametersTagged = typing.TypedDict('Spline3TestParametersTagged', {
+    "@type": typing.Literal["freesurfer/Spline3_test"],
     "x_values": list[float],
     "y_values": list[float],
     "x_new_values": list[float],
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "Spline3_test": spline3_test_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 {
-        "Spline3_test": spline3_test_outputs,
-    }.get(t)
 
 
 class Spline3TestOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `spline3_test(...)`.
+    Output object returned when calling `Spline3TestParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -69,7 +43,7 @@ def spline3_test_params(
     x_values: list[float],
     y_values: list[float],
     x_new_values: list[float],
-) -> Spline3TestParameters:
+) -> Spline3TestParametersTagged:
     """
     Build parameters.
     
@@ -81,7 +55,7 @@ def spline3_test_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "Spline3_test",
+        "@type": "freesurfer/Spline3_test",
         "x_values": x_values,
         "y_values": y_values,
         "x_new_values": x_new_values,
@@ -104,9 +78,9 @@ def spline3_test_cargs(
     """
     cargs = []
     cargs.append("Spline3_test")
-    cargs.extend(map(str, params.get("x_values")))
-    cargs.extend(map(str, params.get("y_values")))
-    cargs.extend(map(str, params.get("x_new_values")))
+    cargs.extend(map(str, params.get("x_values", None)))
+    cargs.extend(map(str, params.get("y_values", None)))
+    cargs.extend(map(str, params.get("x_new_values", None)))
     return cargs
 
 
@@ -133,9 +107,11 @@ def spline3_test_outputs(
 
 def spline3_test_execute(
     params: Spline3TestParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> Spline3TestOutputs:
     """
+    Spline3_test
+    
     A tool for cubic spline interpolation.
     
     Author: FreeSurfer Developers
@@ -144,10 +120,12 @@ def spline3_test_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `Spline3TestOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(SPLINE3_TEST_METADATA)
     params = execution.params(params)
     cargs = spline3_test_cargs(params, execution)
     ret = spline3_test_outputs(params, execution)
@@ -162,6 +140,8 @@ def spline3_test(
     runner: Runner | None = None,
 ) -> Spline3TestOutputs:
     """
+    Spline3_test
+    
     A tool for cubic spline interpolation.
     
     Author: FreeSurfer Developers
@@ -176,20 +156,18 @@ def spline3_test(
     Returns:
         NamedTuple of outputs (described in `Spline3TestOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(SPLINE3_TEST_METADATA)
     params = spline3_test_params(
         x_values=x_values,
         y_values=y_values,
         x_new_values=x_new_values,
     )
-    return spline3_test_execute(params, execution)
+    return spline3_test_execute(params, runner)
 
 
 __all__ = [
     "SPLINE3_TEST_METADATA",
     "Spline3TestOutputs",
-    "Spline3TestParameters",
     "spline3_test",
+    "spline3_test_execute",
     "spline3_test_params",
 ]

niwrap_freesurfer/freesurfer/spm_t_to_b.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 SPM_T_TO_B_METADATA = Metadata(
-    id="aeb4cbf77424f7a4691e003e7bad0ef280a42842.boutiques",
+    id="afaa77ac1bfe69f2d9daa66647a841a94ca2b7f4.boutiques",
     name="spm_t_to_b",
     package="freesurfer",
     container_image_tag="freesurfer/freesurfer:7.4.1",
@@ -14,46 +14,20 @@ SPM_T_TO_B_METADATA = Metadata(
 
 
 SpmTToBParameters = typing.TypedDict('SpmTToBParameters', {
-    "__STYXTYPE__": typing.Literal["spm_t_to_b"],
+    "@type": typing.NotRequired[typing.Literal["freesurfer/spm_t_to_b"]],
+    "spm_stem_format": str,
+    "bshort_stem": str,
+})
+SpmTToBParametersTagged = typing.TypedDict('SpmTToBParametersTagged', {
+    "@type": typing.Literal["freesurfer/spm_t_to_b"],
     "spm_stem_format": str,
     "bshort_stem": str,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "spm_t_to_b": spm_t_to_b_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 SpmTToBOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `spm_t_to_b(...)`.
+    Output object returned when calling `SpmTToBParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -62,7 +36,7 @@ class SpmTToBOutputs(typing.NamedTuple):
 def spm_t_to_b_params(
     spm_stem_format: str,
     bshort_stem: str,
-) -> SpmTToBParameters:
+) -> SpmTToBParametersTagged:
     """
     Build parameters.
     
@@ -73,7 +47,7 @@ def spm_t_to_b_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "spm_t_to_b",
+        "@type": "freesurfer/spm_t_to_b",
         "spm_stem_format": spm_stem_format,
         "bshort_stem": bshort_stem,
     }
@@ -95,8 +69,8 @@ def spm_t_to_b_cargs(
     """
     cargs = []
     cargs.append("spm_t_to_b")
-    cargs.append(params.get("spm_stem_format"))
-    cargs.append(params.get("bshort_stem"))
+    cargs.append(params.get("spm_stem_format", None))
+    cargs.append(params.get("bshort_stem", None))
     return cargs
 
 
@@ -121,9 +95,11 @@ def spm_t_to_b_outputs(
 
 def spm_t_to_b_execute(
     params: SpmTToBParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> SpmTToBOutputs:
     """
+    spm_t_to_b
+    
     Converts SPM format to Bshort format.
     
     Author: FreeSurfer Developers
@@ -132,10 +108,12 @@ def spm_t_to_b_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `SpmTToBOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(SPM_T_TO_B_METADATA)
     params = execution.params(params)
     cargs = spm_t_to_b_cargs(params, execution)
     ret = spm_t_to_b_outputs(params, execution)
@@ -149,6 +127,8 @@ def spm_t_to_b(
     runner: Runner | None = None,
 ) -> SpmTToBOutputs:
     """
+    spm_t_to_b
+    
     Converts SPM format to Bshort format.
     
     Author: FreeSurfer Developers
@@ -162,19 +142,17 @@ def spm_t_to_b(
     Returns:
         NamedTuple of outputs (described in `SpmTToBOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(SPM_T_TO_B_METADATA)
     params = spm_t_to_b_params(
         spm_stem_format=spm_stem_format,
         bshort_stem=bshort_stem,
     )
-    return spm_t_to_b_execute(params, execution)
+    return spm_t_to_b_execute(params, runner)
 
 
 __all__ = [
     "SPM_T_TO_B_METADATA",
     "SpmTToBOutputs",
-    "SpmTToBParameters",
     "spm_t_to_b",
+    "spm_t_to_b_execute",
     "spm_t_to_b_params",
 ]