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

niwrap_mrtrix/mrtrix/mrhistmatch.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 MRHISTMATCH_METADATA = Metadata(
-    id="206ca9f93c734ef895b607551ad543417dfac1ae.boutiques",
+    id="1798cd7ea1a79d9523cf1fd1a7ec35b94aa4a5ab.boutiques",
     name="mrhistmatch",
     package="mrtrix",
     container_image_tag="mrtrix3/mrtrix3:3.0.4",
@@ -14,14 +14,37 @@ MRHISTMATCH_METADATA = Metadata(
 
 
 MrhistmatchConfigParameters = typing.TypedDict('MrhistmatchConfigParameters', {
-    "__STYXTYPE__": typing.Literal["config"],
+    "@type": typing.NotRequired[typing.Literal["config"]],
+    "key": str,
+    "value": str,
+})
+MrhistmatchConfigParametersTagged = typing.TypedDict('MrhistmatchConfigParametersTagged', {
+    "@type": typing.Literal["config"],
     "key": str,
     "value": str,
 })
 
 
 MrhistmatchParameters = typing.TypedDict('MrhistmatchParameters', {
-    "__STYXTYPE__": typing.Literal["mrhistmatch"],
+    "@type": typing.NotRequired[typing.Literal["mrtrix/mrhistmatch"]],
+    "mask_input": typing.NotRequired[InputPathType | None],
+    "mask_target": typing.NotRequired[InputPathType | None],
+    "bins": typing.NotRequired[int | None],
+    "info": bool,
+    "quiet": bool,
+    "debug": bool,
+    "force": bool,
+    "nthreads": typing.NotRequired[int | None],
+    "config": typing.NotRequired[list[MrhistmatchConfigParameters] | None],
+    "help": bool,
+    "version": bool,
+    "type": str,
+    "input": InputPathType,
+    "target": InputPathType,
+    "output": str,
+})
+MrhistmatchParametersTagged = typing.TypedDict('MrhistmatchParametersTagged', {
+    "@type": typing.Literal["mrtrix/mrhistmatch"],
     "mask_input": typing.NotRequired[InputPathType | None],
     "mask_target": typing.NotRequired[InputPathType | None],
     "bins": typing.NotRequired[int | None],
@@ -38,45 +61,12 @@ MrhistmatchParameters = typing.TypedDict('MrhistmatchParameters', {
     "target": InputPathType,
     "output": str,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "mrhistmatch": mrhistmatch_cargs,
-        "config": mrhistmatch_config_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 {
-        "mrhistmatch": mrhistmatch_outputs,
-    }.get(t)
 
 
 def mrhistmatch_config_params(
     key: str,
     value: str,
-) -> MrhistmatchConfigParameters:
+) -> MrhistmatchConfigParametersTagged:
     """
     Build parameters.
     
@@ -87,7 +77,7 @@ def mrhistmatch_config_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "config",
+        "@type": "config",
         "key": key,
         "value": value,
     }
@@ -109,14 +99,14 @@ def mrhistmatch_config_cargs(
     """
     cargs = []
     cargs.append("-config")
-    cargs.append(params.get("key"))
-    cargs.append(params.get("value"))
+    cargs.append(params.get("key", None))
+    cargs.append(params.get("value", None))
     return cargs
 
 
 class MrhistmatchOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `mrhistmatch(...)`.
+    Output object returned when calling `MrhistmatchParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -140,7 +130,7 @@ def mrhistmatch_params(
     config: list[MrhistmatchConfigParameters] | None = None,
     help_: bool = False,
     version: bool = False,
-) -> MrhistmatchParameters:
+) -> MrhistmatchParametersTagged:
     """
     Build parameters.
     
@@ -171,7 +161,7 @@ def mrhistmatch_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "mrhistmatch",
+        "@type": "mrtrix/mrhistmatch",
         "info": info,
         "quiet": quiet,
         "debug": debug,
@@ -211,44 +201,44 @@ def mrhistmatch_cargs(
     """
     cargs = []
     cargs.append("mrhistmatch")
-    if params.get("mask_input") is not None:
+    if params.get("mask_input", None) is not None:
         cargs.extend([
             "-mask_input",
-            execution.input_file(params.get("mask_input"))
+            execution.input_file(params.get("mask_input", None))
         ])
-    if params.get("mask_target") is not None:
+    if params.get("mask_target", None) is not None:
         cargs.extend([
             "-mask_target",
-            execution.input_file(params.get("mask_target"))
+            execution.input_file(params.get("mask_target", None))
         ])
-    if params.get("bins") is not None:
+    if params.get("bins", None) is not None:
         cargs.extend([
             "-bins",
-            str(params.get("bins"))
+            str(params.get("bins", None))
         ])
-    if params.get("info"):
+    if params.get("info", False):
         cargs.append("-info")
-    if params.get("quiet"):
+    if params.get("quiet", False):
         cargs.append("-quiet")
-    if params.get("debug"):
+    if params.get("debug", False):
         cargs.append("-debug")
-    if params.get("force"):
+    if params.get("force", False):
         cargs.append("-force")
-    if params.get("nthreads") is not None:
+    if params.get("nthreads", None) is not None:
         cargs.extend([
             "-nthreads",
-            str(params.get("nthreads"))
+            str(params.get("nthreads", None))
         ])
-    if params.get("config") is not None:
-        cargs.extend([a for c in [dyn_cargs(s["__STYXTYPE__"])(s, execution) for s in params.get("config")] for a in c])
-    if params.get("help"):
+    if params.get("config", None) is not None:
+        cargs.extend([a for c in [mrhistmatch_config_cargs(s, execution) for s in params.get("config", None)] for a in c])
+    if params.get("help", False):
         cargs.append("-help")
-    if params.get("version"):
+    if params.get("version", False):
         cargs.append("-version")
-    cargs.append(params.get("type"))
-    cargs.append(execution.input_file(params.get("input")))
-    cargs.append(execution.input_file(params.get("target")))
-    cargs.append(params.get("output"))
+    cargs.append(params.get("type", None))
+    cargs.append(execution.input_file(params.get("input", None)))
+    cargs.append(execution.input_file(params.get("target", None)))
+    cargs.append(params.get("output", None))
     return cargs
 
 
@@ -267,16 +257,18 @@ def mrhistmatch_outputs(
     """
     ret = MrhistmatchOutputs(
         root=execution.output_file("."),
-        output=execution.output_file(params.get("output")),
+        output=execution.output_file(params.get("output", None)),
     )
     return ret
 
 
 def mrhistmatch_execute(
     params: MrhistmatchParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> MrhistmatchOutputs:
     """
+    mrhistmatch
+    
     Modify the intensities of one image to match the histogram of another.
     
     
@@ -296,10 +288,12 @@ def mrhistmatch_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `MrhistmatchOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(MRHISTMATCH_METADATA)
     params = execution.params(params)
     cargs = mrhistmatch_cargs(params, execution)
     ret = mrhistmatch_outputs(params, execution)
@@ -326,6 +320,8 @@ def mrhistmatch(
     runner: Runner | None = None,
 ) -> MrhistmatchOutputs:
     """
+    mrhistmatch
+    
     Modify the intensities of one image to match the histogram of another.
     
     
@@ -370,8 +366,6 @@ def mrhistmatch(
     Returns:
         NamedTuple of outputs (described in `MrhistmatchOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(MRHISTMATCH_METADATA)
     params = mrhistmatch_params(
         mask_input=mask_input,
         mask_target=mask_target,
@@ -389,15 +383,14 @@ def mrhistmatch(
         target=target,
         output=output,
     )
-    return mrhistmatch_execute(params, execution)
+    return mrhistmatch_execute(params, runner)
 
 
 __all__ = [
     "MRHISTMATCH_METADATA",
-    "MrhistmatchConfigParameters",
     "MrhistmatchOutputs",
-    "MrhistmatchParameters",
     "mrhistmatch",
     "mrhistmatch_config_params",
+    "mrhistmatch_execute",
     "mrhistmatch_params",
 ]

niwrap_mrtrix/mrtrix/mrhistogram.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 MRHISTOGRAM_METADATA = Metadata(
-    id="ade91b73497b020ffb26e31a552c8567783427a9.boutiques",
+    id="5c07265a48110ef8900f48adf78d74320253b0c0.boutiques",
     name="mrhistogram",
     package="mrtrix",
     container_image_tag="mrtrix3/mrtrix3:3.0.4",
@@ -14,14 +14,37 @@ MRHISTOGRAM_METADATA = Metadata(
 
 
 MrhistogramConfigParameters = typing.TypedDict('MrhistogramConfigParameters', {
-    "__STYXTYPE__": typing.Literal["config"],
+    "@type": typing.NotRequired[typing.Literal["config"]],
+    "key": str,
+    "value": str,
+})
+MrhistogramConfigParametersTagged = typing.TypedDict('MrhistogramConfigParametersTagged', {
+    "@type": typing.Literal["config"],
     "key": str,
     "value": str,
 })
 
 
 MrhistogramParameters = typing.TypedDict('MrhistogramParameters', {
-    "__STYXTYPE__": typing.Literal["mrhistogram"],
+    "@type": typing.NotRequired[typing.Literal["mrtrix/mrhistogram"]],
+    "bins": typing.NotRequired[int | None],
+    "template": typing.NotRequired[InputPathType | None],
+    "mask": typing.NotRequired[InputPathType | None],
+    "ignorezero": bool,
+    "allvolumes": bool,
+    "info": bool,
+    "quiet": bool,
+    "debug": bool,
+    "force": bool,
+    "nthreads": typing.NotRequired[int | None],
+    "config": typing.NotRequired[list[MrhistogramConfigParameters] | None],
+    "help": bool,
+    "version": bool,
+    "image": InputPathType,
+    "hist": str,
+})
+MrhistogramParametersTagged = typing.TypedDict('MrhistogramParametersTagged', {
+    "@type": typing.Literal["mrtrix/mrhistogram"],
     "bins": typing.NotRequired[int | None],
     "template": typing.NotRequired[InputPathType | None],
     "mask": typing.NotRequired[InputPathType | None],
@@ -38,45 +61,12 @@ MrhistogramParameters = typing.TypedDict('MrhistogramParameters', {
     "image": InputPathType,
     "hist": str,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "mrhistogram": mrhistogram_cargs,
-        "config": mrhistogram_config_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 {
-        "mrhistogram": mrhistogram_outputs,
-    }.get(t)
 
 
 def mrhistogram_config_params(
     key: str,
     value: str,
-) -> MrhistogramConfigParameters:
+) -> MrhistogramConfigParametersTagged:
     """
     Build parameters.
     
@@ -87,7 +77,7 @@ def mrhistogram_config_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "config",
+        "@type": "config",
         "key": key,
         "value": value,
     }
@@ -109,14 +99,14 @@ def mrhistogram_config_cargs(
     """
     cargs = []
     cargs.append("-config")
-    cargs.append(params.get("key"))
-    cargs.append(params.get("value"))
+    cargs.append(params.get("key", None))
+    cargs.append(params.get("value", None))
     return cargs
 
 
 class MrhistogramOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `mrhistogram(...)`.
+    Output object returned when calling `MrhistogramParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -140,7 +130,7 @@ def mrhistogram_params(
     config: list[MrhistogramConfigParameters] | None = None,
     help_: bool = False,
     version: bool = False,
-) -> MrhistogramParameters:
+) -> MrhistogramParametersTagged:
     """
     Build parameters.
     
@@ -170,7 +160,7 @@ def mrhistogram_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "mrhistogram",
+        "@type": "mrtrix/mrhistogram",
         "ignorezero": ignorezero,
         "allvolumes": allvolumes,
         "info": info,
@@ -210,46 +200,46 @@ def mrhistogram_cargs(
     """
     cargs = []
     cargs.append("mrhistogram")
-    if params.get("bins") is not None:
+    if params.get("bins", None) is not None:
         cargs.extend([
             "-bins",
-            str(params.get("bins"))
+            str(params.get("bins", None))
         ])
-    if params.get("template") is not None:
+    if params.get("template", None) is not None:
         cargs.extend([
             "-template",
-            execution.input_file(params.get("template"))
+            execution.input_file(params.get("template", None))
         ])
-    if params.get("mask") is not None:
+    if params.get("mask", None) is not None:
         cargs.extend([
             "-mask",
-            execution.input_file(params.get("mask"))
+            execution.input_file(params.get("mask", None))
         ])
-    if params.get("ignorezero"):
+    if params.get("ignorezero", False):
         cargs.append("-ignorezero")
-    if params.get("allvolumes"):
+    if params.get("allvolumes", False):
         cargs.append("-allvolumes")
-    if params.get("info"):
+    if params.get("info", False):
         cargs.append("-info")
-    if params.get("quiet"):
+    if params.get("quiet", False):
         cargs.append("-quiet")
-    if params.get("debug"):
+    if params.get("debug", False):
         cargs.append("-debug")
-    if params.get("force"):
+    if params.get("force", False):
         cargs.append("-force")
-    if params.get("nthreads") is not None:
+    if params.get("nthreads", None) is not None:
         cargs.extend([
             "-nthreads",
-            str(params.get("nthreads"))
+            str(params.get("nthreads", None))
         ])
-    if params.get("config") is not None:
-        cargs.extend([a for c in [dyn_cargs(s["__STYXTYPE__"])(s, execution) for s in params.get("config")] for a in c])
-    if params.get("help"):
+    if params.get("config", None) is not None:
+        cargs.extend([a for c in [mrhistogram_config_cargs(s, execution) for s in params.get("config", None)] for a in c])
+    if params.get("help", False):
         cargs.append("-help")
-    if params.get("version"):
+    if params.get("version", False):
         cargs.append("-version")
-    cargs.append(execution.input_file(params.get("image")))
-    cargs.append(params.get("hist"))
+    cargs.append(execution.input_file(params.get("image", None)))
+    cargs.append(params.get("hist", None))
     return cargs
 
 
@@ -268,16 +258,18 @@ def mrhistogram_outputs(
     """
     ret = MrhistogramOutputs(
         root=execution.output_file("."),
-        hist=execution.output_file(params.get("hist")),
+        hist=execution.output_file(params.get("hist", None)),
     )
     return ret
 
 
 def mrhistogram_execute(
     params: MrhistogramParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> MrhistogramOutputs:
     """
+    mrhistogram
+    
     Generate a histogram of image intensities.
     
     
@@ -292,10 +284,12 @@ def mrhistogram_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `MrhistogramOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(MRHISTOGRAM_METADATA)
     params = execution.params(params)
     cargs = mrhistogram_cargs(params, execution)
     ret = mrhistogram_outputs(params, execution)
@@ -322,6 +316,8 @@ def mrhistogram(
     runner: Runner | None = None,
 ) -> MrhistogramOutputs:
     """
+    mrhistogram
+    
     Generate a histogram of image intensities.
     
     
@@ -360,8 +356,6 @@ def mrhistogram(
     Returns:
         NamedTuple of outputs (described in `MrhistogramOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(MRHISTOGRAM_METADATA)
     params = mrhistogram_params(
         bins=bins,
         template=template,
@@ -379,15 +373,14 @@ def mrhistogram(
         image=image,
         hist=hist,
     )
-    return mrhistogram_execute(params, execution)
+    return mrhistogram_execute(params, runner)
 
 
 __all__ = [
     "MRHISTOGRAM_METADATA",
-    "MrhistogramConfigParameters",
     "MrhistogramOutputs",
-    "MrhistogramParameters",
     "mrhistogram",
     "mrhistogram_config_params",
+    "mrhistogram_execute",
     "mrhistogram_params",
 ]