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

niwrap_freesurfer/freesurfer/inflate_subject3.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 INFLATE_SUBJECT3_METADATA = Metadata(
-    id="a274d70311c1a539bade6099eed3c3f3614e2009.boutiques",
+    id="2a3467cdf0c5364fc88afa8035d3e46ffcdacfe8.boutiques",
     name="inflate_subject3",
     package="freesurfer",
     container_image_tag="freesurfer/freesurfer:7.4.1",
@@ -14,46 +14,20 @@ INFLATE_SUBJECT3_METADATA = Metadata(
 
 
 InflateSubject3Parameters = typing.TypedDict('InflateSubject3Parameters', {
-    "__STYXTYPE__": typing.Literal["inflate_subject3"],
+    "@type": typing.NotRequired[typing.Literal["freesurfer/inflate_subject3"]],
+    "subjects_dir": str,
+    "script_name": str,
+})
+InflateSubject3ParametersTagged = typing.TypedDict('InflateSubject3ParametersTagged', {
+    "@type": typing.Literal["freesurfer/inflate_subject3"],
     "subjects_dir": str,
     "script_name": str,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "inflate_subject3": inflate_subject3_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 InflateSubject3Outputs(typing.NamedTuple):
     """
-    Output object returned when calling `inflate_subject3(...)`.
+    Output object returned when calling `InflateSubject3Parameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -62,7 +36,7 @@ class InflateSubject3Outputs(typing.NamedTuple):
 def inflate_subject3_params(
     subjects_dir: str,
     script_name: str,
-) -> InflateSubject3Parameters:
+) -> InflateSubject3ParametersTagged:
     """
     Build parameters.
     
@@ -73,7 +47,7 @@ def inflate_subject3_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "inflate_subject3",
+        "@type": "freesurfer/inflate_subject3",
         "subjects_dir": subjects_dir,
         "script_name": script_name,
     }
@@ -95,8 +69,8 @@ def inflate_subject3_cargs(
     """
     cargs = []
     cargs.append("inflate_subject3")
-    cargs.append(params.get("subjects_dir"))
-    cargs.append(params.get("script_name"))
+    cargs.append(params.get("subjects_dir", None))
+    cargs.append(params.get("script_name", None))
     return cargs
 
 
@@ -121,9 +95,11 @@ def inflate_subject3_outputs(
 
 def inflate_subject3_execute(
     params: InflateSubject3Parameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> InflateSubject3Outputs:
     """
+    inflate_subject3
+    
     A tool related to subject inflation in FreeSurfer.
     
     Author: FreeSurfer Developers
@@ -132,10 +108,12 @@ def inflate_subject3_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `InflateSubject3Outputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(INFLATE_SUBJECT3_METADATA)
     params = execution.params(params)
     cargs = inflate_subject3_cargs(params, execution)
     ret = inflate_subject3_outputs(params, execution)
@@ -149,6 +127,8 @@ def inflate_subject3(
     runner: Runner | None = None,
 ) -> InflateSubject3Outputs:
     """
+    inflate_subject3
+    
     A tool related to subject inflation in FreeSurfer.
     
     Author: FreeSurfer Developers
@@ -162,19 +142,17 @@ def inflate_subject3(
     Returns:
         NamedTuple of outputs (described in `InflateSubject3Outputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(INFLATE_SUBJECT3_METADATA)
     params = inflate_subject3_params(
         subjects_dir=subjects_dir,
         script_name=script_name,
     )
-    return inflate_subject3_execute(params, execution)
+    return inflate_subject3_execute(params, runner)
 
 
 __all__ = [
     "INFLATE_SUBJECT3_METADATA",
     "InflateSubject3Outputs",
-    "InflateSubject3Parameters",
     "inflate_subject3",
+    "inflate_subject3_execute",
     "inflate_subject3_params",
 ]

niwrap_freesurfer/freesurfer/inflate_subject_lh.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 INFLATE_SUBJECT_LH_METADATA = Metadata(
-    id="3cb9de559c7fa9b43ece49505897c8f4be0e1ac0.boutiques",
+    id="ac5a1dfe019435f6ccb7456a38a5b0acc8acbb5b.boutiques",
     name="inflate_subject-lh",
     package="freesurfer",
     container_image_tag="freesurfer/freesurfer:7.4.1",
@@ -14,46 +14,20 @@ INFLATE_SUBJECT_LH_METADATA = Metadata(
 
 
 InflateSubjectLhParameters = typing.TypedDict('InflateSubjectLhParameters', {
-    "__STYXTYPE__": typing.Literal["inflate_subject-lh"],
+    "@type": typing.NotRequired[typing.Literal["freesurfer/inflate_subject-lh"]],
+    "input_folder": str,
+    "hostname_flag": bool,
+})
+InflateSubjectLhParametersTagged = typing.TypedDict('InflateSubjectLhParametersTagged', {
+    "@type": typing.Literal["freesurfer/inflate_subject-lh"],
     "input_folder": str,
     "hostname_flag": bool,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "inflate_subject-lh": inflate_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 InflateSubjectLhOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `inflate_subject_lh(...)`.
+    Output object returned when calling `InflateSubjectLhParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -62,7 +36,7 @@ class InflateSubjectLhOutputs(typing.NamedTuple):
 def inflate_subject_lh_params(
     input_folder: str,
     hostname_flag: bool = False,
-) -> InflateSubjectLhParameters:
+) -> InflateSubjectLhParametersTagged:
     """
     Build parameters.
     
@@ -73,7 +47,7 @@ def inflate_subject_lh_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "inflate_subject-lh",
+        "@type": "freesurfer/inflate_subject-lh",
         "input_folder": input_folder,
         "hostname_flag": hostname_flag,
     }
@@ -97,9 +71,9 @@ def inflate_subject_lh_cargs(
     cargs.append("inflate_subject-lh")
     cargs.extend([
         "-lh",
-        params.get("input_folder")
+        params.get("input_folder", None)
     ])
-    if params.get("hostname_flag"):
+    if params.get("hostname_flag", False):
         cargs.append("hostname")
     return cargs
 
@@ -125,9 +99,11 @@ def inflate_subject_lh_outputs(
 
 def inflate_subject_lh_execute(
     params: InflateSubjectLhParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> InflateSubjectLhOutputs:
     """
+    inflate_subject-lh
+    
     A tool to process and inflate left hemisphere subject data in FreeSurfer.
     
     Author: FreeSurfer Developers
@@ -136,10 +112,12 @@ def inflate_subject_lh_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `InflateSubjectLhOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(INFLATE_SUBJECT_LH_METADATA)
     params = execution.params(params)
     cargs = inflate_subject_lh_cargs(params, execution)
     ret = inflate_subject_lh_outputs(params, execution)
@@ -153,6 +131,8 @@ def inflate_subject_lh(
     runner: Runner | None = None,
 ) -> InflateSubjectLhOutputs:
     """
+    inflate_subject-lh
+    
     A tool to process and inflate left hemisphere subject data in FreeSurfer.
     
     Author: FreeSurfer Developers
@@ -166,19 +146,17 @@ def inflate_subject_lh(
     Returns:
         NamedTuple of outputs (described in `InflateSubjectLhOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(INFLATE_SUBJECT_LH_METADATA)
     params = inflate_subject_lh_params(
         input_folder=input_folder,
         hostname_flag=hostname_flag,
     )
-    return inflate_subject_lh_execute(params, execution)
+    return inflate_subject_lh_execute(params, runner)
 
 
 __all__ = [
     "INFLATE_SUBJECT_LH_METADATA",
     "InflateSubjectLhOutputs",
-    "InflateSubjectLhParameters",
     "inflate_subject_lh",
+    "inflate_subject_lh_execute",
     "inflate_subject_lh_params",
 ]

niwrap_freesurfer/freesurfer/inflate_subject_new.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 INFLATE_SUBJECT_NEW_METADATA = Metadata(
-    id="c3ea7e0b28d39449428a797435fdabb03c6243ca.boutiques",
+    id="8ba490a39fc913cee2739536c1b7b31a7a06be46.boutiques",
     name="inflate_subject_new",
     package="freesurfer",
     container_image_tag="freesurfer/freesurfer:7.4.1",
@@ -14,45 +14,18 @@ INFLATE_SUBJECT_NEW_METADATA = Metadata(
 
 
 InflateSubjectNewParameters = typing.TypedDict('InflateSubjectNewParameters', {
-    "__STYXTYPE__": typing.Literal["inflate_subject_new"],
+    "@type": typing.NotRequired[typing.Literal["freesurfer/inflate_subject_new"]],
+    "subject_dir": str,
+})
+InflateSubjectNewParametersTagged = typing.TypedDict('InflateSubjectNewParametersTagged', {
+    "@type": typing.Literal["freesurfer/inflate_subject_new"],
     "subject_dir": str,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "inflate_subject_new": inflate_subject_new_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 InflateSubjectNewOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `inflate_subject_new(...)`.
+    Output object returned when calling `InflateSubjectNewParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -60,7 +33,7 @@ class InflateSubjectNewOutputs(typing.NamedTuple):
 
 def inflate_subject_new_params(
     subject_dir: str,
-) -> InflateSubjectNewParameters:
+) -> InflateSubjectNewParametersTagged:
     """
     Build parameters.
     
@@ -70,7 +43,7 @@ def inflate_subject_new_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "inflate_subject_new",
+        "@type": "freesurfer/inflate_subject_new",
         "subject_dir": subject_dir,
     }
     return params
@@ -91,7 +64,7 @@ def inflate_subject_new_cargs(
     """
     cargs = []
     cargs.append("inflate_subject_new")
-    cargs.append(params.get("subject_dir"))
+    cargs.append(params.get("subject_dir", None))
     return cargs
 
 
@@ -116,9 +89,11 @@ def inflate_subject_new_outputs(
 
 def inflate_subject_new_execute(
     params: InflateSubjectNewParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> InflateSubjectNewOutputs:
     """
+    inflate_subject_new
+    
     Tool to inflate subject surfaces.
     
     Author: FreeSurfer Developers
@@ -127,10 +102,12 @@ def inflate_subject_new_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `InflateSubjectNewOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(INFLATE_SUBJECT_NEW_METADATA)
     params = execution.params(params)
     cargs = inflate_subject_new_cargs(params, execution)
     ret = inflate_subject_new_outputs(params, execution)
@@ -143,6 +120,8 @@ def inflate_subject_new(
     runner: Runner | None = None,
 ) -> InflateSubjectNewOutputs:
     """
+    inflate_subject_new
+    
     Tool to inflate subject surfaces.
     
     Author: FreeSurfer Developers
@@ -155,18 +134,16 @@ def inflate_subject_new(
     Returns:
         NamedTuple of outputs (described in `InflateSubjectNewOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(INFLATE_SUBJECT_NEW_METADATA)
     params = inflate_subject_new_params(
         subject_dir=subject_dir,
     )
-    return inflate_subject_new_execute(params, execution)
+    return inflate_subject_new_execute(params, runner)
 
 
 __all__ = [
     "INFLATE_SUBJECT_NEW_METADATA",
     "InflateSubjectNewOutputs",
-    "InflateSubjectNewParameters",
     "inflate_subject_new",
+    "inflate_subject_new_execute",
     "inflate_subject_new_params",
 ]

niwrap_freesurfer/freesurfer/inflate_subject_new_lh.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 INFLATE_SUBJECT_NEW_LH_METADATA = Metadata(
-    id="803ce01fc57b8450dd954e649a01b6a599ec0966.boutiques",
+    id="5f1ddf01384cc8311d85a7088553b3744bdfbd03.boutiques",
     name="inflate_subject_new-lh",
     package="freesurfer",
     container_image_tag="freesurfer/freesurfer:7.4.1",
@@ -14,46 +14,18 @@ INFLATE_SUBJECT_NEW_LH_METADATA = Metadata(
 
 
 InflateSubjectNewLhParameters = typing.TypedDict('InflateSubjectNewLhParameters', {
-    "__STYXTYPE__": typing.Literal["inflate_subject_new-lh"],
+    "@type": typing.NotRequired[typing.Literal["freesurfer/inflate_subject_new-lh"]],
+    "subject_dir": str,
+})
+InflateSubjectNewLhParametersTagged = typing.TypedDict('InflateSubjectNewLhParametersTagged', {
+    "@type": typing.Literal["freesurfer/inflate_subject_new-lh"],
     "subject_dir": str,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "inflate_subject_new-lh": inflate_subject_new_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 {
-        "inflate_subject_new-lh": inflate_subject_new_lh_outputs,
-    }.get(t)
 
 
 class InflateSubjectNewLhOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `inflate_subject_new_lh(...)`.
+    Output object returned when calling `InflateSubjectNewLhParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -63,7 +35,7 @@ class InflateSubjectNewLhOutputs(typing.NamedTuple):
 
 def inflate_subject_new_lh_params(
     subject_dir: str,
-) -> InflateSubjectNewLhParameters:
+) -> InflateSubjectNewLhParametersTagged:
     """
     Build parameters.
     
@@ -73,7 +45,7 @@ def inflate_subject_new_lh_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "inflate_subject_new-lh",
+        "@type": "freesurfer/inflate_subject_new-lh",
         "subject_dir": subject_dir,
     }
     return params
@@ -93,10 +65,10 @@ def inflate_subject_new_lh_cargs(
         Command-line arguments.
     """
     cargs = []
-    cargs.append("inflate_subject_new")
+    cargs.append("inflate_subject_new-lh")
     cargs.extend([
         "-lh",
-        params.get("subject_dir")
+        params.get("subject_dir", None)
     ])
     return cargs
 
@@ -116,16 +88,18 @@ def inflate_subject_new_lh_outputs(
     """
     ret = InflateSubjectNewLhOutputs(
         root=execution.output_file("."),
-        inflated_surface=execution.output_file(params.get("subject_dir") + "/surf/lh.inflated"),
+        inflated_surface=execution.output_file(params.get("subject_dir", None) + "/surf/lh.inflated"),
     )
     return ret
 
 
 def inflate_subject_new_lh_execute(
     params: InflateSubjectNewLhParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> InflateSubjectNewLhOutputs:
     """
+    inflate_subject_new-lh
+    
     Tool for inflating the left hemisphere of a subject in FreeSurfer.
     
     Author: FreeSurfer Developers
@@ -134,10 +108,12 @@ def inflate_subject_new_lh_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `InflateSubjectNewLhOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(INFLATE_SUBJECT_NEW_LH_METADATA)
     params = execution.params(params)
     cargs = inflate_subject_new_lh_cargs(params, execution)
     ret = inflate_subject_new_lh_outputs(params, execution)
@@ -150,6 +126,8 @@ def inflate_subject_new_lh(
     runner: Runner | None = None,
 ) -> InflateSubjectNewLhOutputs:
     """
+    inflate_subject_new-lh
+    
     Tool for inflating the left hemisphere of a subject in FreeSurfer.
     
     Author: FreeSurfer Developers
@@ -162,18 +140,16 @@ def inflate_subject_new_lh(
     Returns:
         NamedTuple of outputs (described in `InflateSubjectNewLhOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(INFLATE_SUBJECT_NEW_LH_METADATA)
     params = inflate_subject_new_lh_params(
         subject_dir=subject_dir,
     )
-    return inflate_subject_new_lh_execute(params, execution)
+    return inflate_subject_new_lh_execute(params, runner)
 
 
 __all__ = [
     "INFLATE_SUBJECT_NEW_LH_METADATA",
     "InflateSubjectNewLhOutputs",
-    "InflateSubjectNewLhParameters",
     "inflate_subject_new_lh",
+    "inflate_subject_new_lh_execute",
     "inflate_subject_new_lh_params",
 ]