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

niwrap_afni/afni/v__djunct_4d_slices_to_3d_vol.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__DJUNCT_4D_SLICES_TO_3D_VOL_METADATA = Metadata(
-    id="38d40d23214be20723f89d4b5c429e8239857bce.boutiques",
+    id="d33d93b8039f4982d3532e2434ea65801211058f.boutiques",
     name="@djunct_4d_slices_to_3d_vol",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,46 +14,18 @@ V__DJUNCT_4D_SLICES_TO_3D_VOL_METADATA = Metadata(
 
 
 VDjunct4dSlicesTo3dVolParameters = typing.TypedDict('VDjunct4dSlicesTo3dVolParameters', {
-    "__STYXTYPE__": typing.Literal["@djunct_4d_slices_to_3d_vol"],
+    "@type": typing.NotRequired[typing.Literal["afni/@djunct_4d_slices_to_3d_vol"]],
+    "do_something": bool,
+})
+VDjunct4dSlicesTo3dVolParametersTagged = typing.TypedDict('VDjunct4dSlicesTo3dVolParametersTagged', {
+    "@type": typing.Literal["afni/@djunct_4d_slices_to_3d_vol"],
     "do_something": bool,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "@djunct_4d_slices_to_3d_vol": v__djunct_4d_slices_to_3d_vol_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 {
-        "@djunct_4d_slices_to_3d_vol": v__djunct_4d_slices_to_3d_vol_outputs,
-    }.get(t)
 
 
 class VDjunct4dSlicesTo3dVolOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__djunct_4d_slices_to_3d_vol(...)`.
+    Output object returned when calling `VDjunct4dSlicesTo3dVolParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -63,7 +35,7 @@ class VDjunct4dSlicesTo3dVolOutputs(typing.NamedTuple):
 
 def v__djunct_4d_slices_to_3d_vol_params(
     do_something: bool = False,
-) -> VDjunct4dSlicesTo3dVolParameters:
+) -> VDjunct4dSlicesTo3dVolParametersTagged:
     """
     Build parameters.
     
@@ -73,7 +45,7 @@ def v__djunct_4d_slices_to_3d_vol_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@djunct_4d_slices_to_3d_vol",
+        "@type": "afni/@djunct_4d_slices_to_3d_vol",
         "do_something": do_something,
     }
     return params
@@ -94,7 +66,7 @@ def v__djunct_4d_slices_to_3d_vol_cargs(
     """
     cargs = []
     cargs.append("@djunct_4d_slices_to_3d_vol")
-    if params.get("do_something"):
+    if params.get("do_something", False):
         cargs.append("-do-something")
     return cargs
 
@@ -121,9 +93,11 @@ def v__djunct_4d_slices_to_3d_vol_outputs(
 
 def v__djunct_4d_slices_to_3d_vol_execute(
     params: VDjunct4dSlicesTo3dVolParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VDjunct4dSlicesTo3dVolOutputs:
     """
+    @djunct_4d_slices_to_3d_vol
+    
     Tool description goes here.
     
     Author: AFNI Developers
@@ -132,10 +106,12 @@ def v__djunct_4d_slices_to_3d_vol_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VDjunct4dSlicesTo3dVolOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__DJUNCT_4D_SLICES_TO_3D_VOL_METADATA)
     params = execution.params(params)
     cargs = v__djunct_4d_slices_to_3d_vol_cargs(params, execution)
     ret = v__djunct_4d_slices_to_3d_vol_outputs(params, execution)
@@ -148,6 +124,8 @@ def v__djunct_4d_slices_to_3d_vol(
     runner: Runner | None = None,
 ) -> VDjunct4dSlicesTo3dVolOutputs:
     """
+    @djunct_4d_slices_to_3d_vol
+    
     Tool description goes here.
     
     Author: AFNI Developers
@@ -160,18 +138,16 @@ def v__djunct_4d_slices_to_3d_vol(
     Returns:
         NamedTuple of outputs (described in `VDjunct4dSlicesTo3dVolOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__DJUNCT_4D_SLICES_TO_3D_VOL_METADATA)
     params = v__djunct_4d_slices_to_3d_vol_params(
         do_something=do_something,
     )
-    return v__djunct_4d_slices_to_3d_vol_execute(params, execution)
+    return v__djunct_4d_slices_to_3d_vol_execute(params, runner)
 
 
 __all__ = [
     "VDjunct4dSlicesTo3dVolOutputs",
-    "VDjunct4dSlicesTo3dVolParameters",
     "V__DJUNCT_4D_SLICES_TO_3D_VOL_METADATA",
     "v__djunct_4d_slices_to_3d_vol",
+    "v__djunct_4d_slices_to_3d_vol_execute",
     "v__djunct_4d_slices_to_3d_vol_params",
 ]

niwrap_afni/afni/v__djunct_anonymize.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__DJUNCT_ANONYMIZE_METADATA = Metadata(
-    id="7bfa2f9016b41e8fc4630ab0e9052f08dddc078c.boutiques",
+    id="cc213a091a7360e3ccd4f1c5d714796545b936db.boutiques",
     name="@djunct_anonymize",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,48 +14,24 @@ V__DJUNCT_ANONYMIZE_METADATA = Metadata(
 
 
 VDjunctAnonymizeParameters = typing.TypedDict('VDjunctAnonymizeParameters', {
-    "__STYXTYPE__": typing.Literal["@djunct_anonymize"],
+    "@type": typing.NotRequired[typing.Literal["afni/@djunct_anonymize"]],
+    "input": InputPathType,
+    "add_note": typing.NotRequired[str | None],
+    "copy_to": typing.NotRequired[InputPathType | None],
+    "overwrite": bool,
+})
+VDjunctAnonymizeParametersTagged = typing.TypedDict('VDjunctAnonymizeParametersTagged', {
+    "@type": typing.Literal["afni/@djunct_anonymize"],
     "input": InputPathType,
     "add_note": typing.NotRequired[str | None],
     "copy_to": typing.NotRequired[InputPathType | None],
     "overwrite": bool,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "@djunct_anonymize": v__djunct_anonymize_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 VDjunctAnonymizeOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__djunct_anonymize(...)`.
+    Output object returned when calling `VDjunctAnonymizeParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -66,7 +42,7 @@ def v__djunct_anonymize_params(
     add_note: str | None = None,
     copy_to: InputPathType | None = None,
     overwrite: bool = False,
-) -> VDjunctAnonymizeParameters:
+) -> VDjunctAnonymizeParametersTagged:
     """
     Build parameters.
     
@@ -79,7 +55,7 @@ def v__djunct_anonymize_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@djunct_anonymize",
+        "@type": "afni/@djunct_anonymize",
         "input": input_,
         "overwrite": overwrite,
     }
@@ -105,18 +81,18 @@ def v__djunct_anonymize_cargs(
     """
     cargs = []
     cargs.append("@djunct_anonymize")
-    cargs.append(execution.input_file(params.get("input")))
-    if params.get("add_note") is not None:
+    cargs.append(execution.input_file(params.get("input", None)))
+    if params.get("add_note", None) is not None:
         cargs.extend([
             "-add_note",
-            params.get("add_note")
+            params.get("add_note", None)
         ])
-    if params.get("copy_to") is not None:
+    if params.get("copy_to", None) is not None:
         cargs.extend([
             "-copy_to",
-            execution.input_file(params.get("copy_to"))
+            execution.input_file(params.get("copy_to", None))
         ])
-    if params.get("overwrite"):
+    if params.get("overwrite", False):
         cargs.append("-overwrite")
     return cargs
 
@@ -142,9 +118,11 @@ def v__djunct_anonymize_outputs(
 
 def v__djunct_anonymize_execute(
     params: VDjunctAnonymizeParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VDjunctAnonymizeOutputs:
     """
+    @djunct_anonymize
+    
     Helper program to anonymize files.
     
     Author: AFNI Developers
@@ -153,10 +131,12 @@ def v__djunct_anonymize_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VDjunctAnonymizeOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__DJUNCT_ANONYMIZE_METADATA)
     params = execution.params(params)
     cargs = v__djunct_anonymize_cargs(params, execution)
     ret = v__djunct_anonymize_outputs(params, execution)
@@ -172,6 +152,8 @@ def v__djunct_anonymize(
     runner: Runner | None = None,
 ) -> VDjunctAnonymizeOutputs:
     """
+    @djunct_anonymize
+    
     Helper program to anonymize files.
     
     Author: AFNI Developers
@@ -187,21 +169,19 @@ def v__djunct_anonymize(
     Returns:
         NamedTuple of outputs (described in `VDjunctAnonymizeOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__DJUNCT_ANONYMIZE_METADATA)
     params = v__djunct_anonymize_params(
         input_=input_,
         add_note=add_note,
         copy_to=copy_to,
         overwrite=overwrite,
     )
-    return v__djunct_anonymize_execute(params, execution)
+    return v__djunct_anonymize_execute(params, runner)
 
 
 __all__ = [
     "VDjunctAnonymizeOutputs",
-    "VDjunctAnonymizeParameters",
     "V__DJUNCT_ANONYMIZE_METADATA",
     "v__djunct_anonymize",
+    "v__djunct_anonymize_execute",
     "v__djunct_anonymize_params",
 ]

niwrap_afni/afni/v__djunct_dwi_selector_tcsh.py

@@ -0,0 +1,170 @@
+# This file was auto generated by Styx.
+# Do not edit this file directly.
+
+import typing
+import pathlib
+from styxdefs import *
+
+V__DJUNCT_DWI_SELECTOR_TCSH_METADATA = Metadata(
+    id="109039a88bf5d11d8ade6641a42d55a055de6525.boutiques",
+    name="@djunct_dwi_selector.tcsh",
+    package="afni",
+    container_image_tag="afni/afni_make_build:AFNI_24.2.06",
+)
+
+
+VDjunctDwiSelectorTcshParameters = typing.TypedDict('VDjunctDwiSelectorTcshParameters', {
+    "@type": typing.NotRequired[typing.Literal["afni/@djunct_dwi_selector.tcsh"]],
+    "dwi": InputPathType,
+    "png": InputPathType,
+    "outfile": str,
+})
+VDjunctDwiSelectorTcshParametersTagged = typing.TypedDict('VDjunctDwiSelectorTcshParametersTagged', {
+    "@type": typing.Literal["afni/@djunct_dwi_selector.tcsh"],
+    "dwi": InputPathType,
+    "png": InputPathType,
+    "outfile": str,
+})
+
+
+class VDjunctDwiSelectorTcshOutputs(typing.NamedTuple):
+    """
+    Output object returned when calling `VDjunctDwiSelectorTcshParameters(...)`.
+    """
+    root: OutputPathType
+    """Output root folder. This is the root folder for all outputs."""
+    outfile: OutputPathType
+    """The main output file"""
+
+
+def v__djunct_dwi_selector_tcsh_params(
+    dwi: InputPathType,
+    png: InputPathType,
+    outfile: str,
+) -> VDjunctDwiSelectorTcshParametersTagged:
+    """
+    Build parameters.
+    
+    Args:
+        dwi: Input DWI file.
+        png: Output PNG image.
+        outfile: Path to the output file.
+    Returns:
+        Parameter dictionary
+    """
+    params = {
+        "@type": "afni/@djunct_dwi_selector.tcsh",
+        "dwi": dwi,
+        "png": png,
+        "outfile": outfile,
+    }
+    return params
+
+
+def v__djunct_dwi_selector_tcsh_cargs(
+    params: VDjunctDwiSelectorTcshParameters,
+    execution: Execution,
+) -> list[str]:
+    """
+    Build command-line arguments from parameters.
+    
+    Args:
+        params: The parameters.
+        execution: The execution object for resolving input paths.
+    Returns:
+        Command-line arguments.
+    """
+    cargs = []
+    cargs.append("@djunct_dwi_selector.tcsh")
+    cargs.append(execution.input_file(params.get("dwi", None)))
+    cargs.append(execution.input_file(params.get("png", None)))
+    cargs.append(params.get("outfile", None))
+    return cargs
+
+
+def v__djunct_dwi_selector_tcsh_outputs(
+    params: VDjunctDwiSelectorTcshParameters,
+    execution: Execution,
+) -> VDjunctDwiSelectorTcshOutputs:
+    """
+    Build outputs object containing output file paths and possibly stdout/stderr.
+    
+    Args:
+        params: The parameters.
+        execution: The execution object for resolving input paths.
+    Returns:
+        Outputs object.
+    """
+    ret = VDjunctDwiSelectorTcshOutputs(
+        root=execution.output_file("."),
+        outfile=execution.output_file(params.get("outfile", None)),
+    )
+    return ret
+
+
+def v__djunct_dwi_selector_tcsh_execute(
+    params: VDjunctDwiSelectorTcshParameters,
+    runner: Runner | None = None,
+) -> VDjunctDwiSelectorTcshOutputs:
+    """
+    @djunct_dwi_selector.tcsh
+    
+    Selects DWI data and creates a representative image.
+    
+    Author: AFNI Developers
+    
+    URL: https://afni.nimh.nih.gov/
+    
+    Args:
+        params: The parameters.
+        runner: Command runner.
+    Returns:
+        NamedTuple of outputs (described in `VDjunctDwiSelectorTcshOutputs`).
+    """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__DJUNCT_DWI_SELECTOR_TCSH_METADATA)
+    params = execution.params(params)
+    cargs = v__djunct_dwi_selector_tcsh_cargs(params, execution)
+    ret = v__djunct_dwi_selector_tcsh_outputs(params, execution)
+    execution.run(cargs)
+    return ret
+
+
+def v__djunct_dwi_selector_tcsh(
+    dwi: InputPathType,
+    png: InputPathType,
+    outfile: str,
+    runner: Runner | None = None,
+) -> VDjunctDwiSelectorTcshOutputs:
+    """
+    @djunct_dwi_selector.tcsh
+    
+    Selects DWI data and creates a representative image.
+    
+    Author: AFNI Developers
+    
+    URL: https://afni.nimh.nih.gov/
+    
+    Args:
+        dwi: Input DWI file.
+        png: Output PNG image.
+        outfile: Path to the output file.
+        runner: Command runner.
+    Returns:
+        NamedTuple of outputs (described in `VDjunctDwiSelectorTcshOutputs`).
+    """
+    params = v__djunct_dwi_selector_tcsh_params(
+        dwi=dwi,
+        png=png,
+        outfile=outfile,
+    )
+    return v__djunct_dwi_selector_tcsh_execute(params, runner)
+
+
+__all__ = [
+    "VDjunctDwiSelectorTcshOutputs",
+    "V__DJUNCT_DWI_SELECTOR_TCSH_METADATA",
+    "v__djunct_dwi_selector_tcsh",
+    "v__djunct_dwi_selector_tcsh_execute",
+    "v__djunct_dwi_selector_tcsh_params",
+]