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

niwrap_mrtrix/mrtrix/tsfthreshold.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 TSFTHRESHOLD_METADATA = Metadata(
-    id="ba9d0cc1c0a9bce1ed01fd391b2bc14adc5c7f6e.boutiques",
+    id="220d3f902e017234312aae91150846c6019a24c8.boutiques",
     name="tsfthreshold",
     package="mrtrix",
     container_image_tag="mrtrix3/mrtrix3:3.0.4",
@@ -14,14 +14,34 @@ TSFTHRESHOLD_METADATA = Metadata(
 
 
 TsfthresholdConfigParameters = typing.TypedDict('TsfthresholdConfigParameters', {
-    "__STYXTYPE__": typing.Literal["config"],
+    "@type": typing.NotRequired[typing.Literal["config"]],
+    "key": str,
+    "value": str,
+})
+TsfthresholdConfigParametersTagged = typing.TypedDict('TsfthresholdConfigParametersTagged', {
+    "@type": typing.Literal["config"],
     "key": str,
     "value": str,
 })
 
 
 TsfthresholdParameters = typing.TypedDict('TsfthresholdParameters', {
-    "__STYXTYPE__": typing.Literal["tsfthreshold"],
+    "@type": typing.NotRequired[typing.Literal["mrtrix/tsfthreshold"]],
+    "invert": bool,
+    "info": bool,
+    "quiet": bool,
+    "debug": bool,
+    "force": bool,
+    "nthreads": typing.NotRequired[int | None],
+    "config": typing.NotRequired[list[TsfthresholdConfigParameters] | None],
+    "help": bool,
+    "version": bool,
+    "input": InputPathType,
+    "T": float,
+    "output": str,
+})
+TsfthresholdParametersTagged = typing.TypedDict('TsfthresholdParametersTagged', {
+    "@type": typing.Literal["mrtrix/tsfthreshold"],
     "invert": bool,
     "info": bool,
     "quiet": bool,
@@ -35,45 +55,12 @@ TsfthresholdParameters = typing.TypedDict('TsfthresholdParameters', {
     "T": float,
     "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 {
-        "tsfthreshold": tsfthreshold_cargs,
-        "config": tsfthreshold_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 {
-        "tsfthreshold": tsfthreshold_outputs,
-    }.get(t)
 
 
 def tsfthreshold_config_params(
     key: str,
     value: str,
-) -> TsfthresholdConfigParameters:
+) -> TsfthresholdConfigParametersTagged:
     """
     Build parameters.
     
@@ -84,7 +71,7 @@ def tsfthreshold_config_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "config",
+        "@type": "config",
         "key": key,
         "value": value,
     }
@@ -106,14 +93,14 @@ def tsfthreshold_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 TsfthresholdOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `tsfthreshold(...)`.
+    Output object returned when calling `TsfthresholdParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -134,7 +121,7 @@ def tsfthreshold_params(
     config: list[TsfthresholdConfigParameters] | None = None,
     help_: bool = False,
     version: bool = False,
-) -> TsfthresholdParameters:
+) -> TsfthresholdParametersTagged:
     """
     Build parameters.
     
@@ -159,7 +146,7 @@ def tsfthreshold_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "tsfthreshold",
+        "@type": "mrtrix/tsfthreshold",
         "invert": invert,
         "info": info,
         "quiet": quiet,
@@ -193,30 +180,30 @@ def tsfthreshold_cargs(
     """
     cargs = []
     cargs.append("tsfthreshold")
-    if params.get("invert"):
+    if params.get("invert", False):
         cargs.append("-invert")
-    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 [tsfthreshold_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("input")))
-    cargs.append(str(params.get("T")))
-    cargs.append(params.get("output"))
+    cargs.append(execution.input_file(params.get("input", None)))
+    cargs.append(str(params.get("T", None)))
+    cargs.append(params.get("output", None))
     return cargs
 
 
@@ -235,16 +222,18 @@ def tsfthreshold_outputs(
     """
     ret = TsfthresholdOutputs(
         root=execution.output_file("."),
-        output=execution.output_file(params.get("output")),
+        output=execution.output_file(params.get("output", None)),
     )
     return ret
 
 
 def tsfthreshold_execute(
     params: TsfthresholdParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> TsfthresholdOutputs:
     """
+    tsfthreshold
+    
     Threshold and invert track scalar files.
     
     
@@ -259,10 +248,12 @@ def tsfthreshold_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `TsfthresholdOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(TSFTHRESHOLD_METADATA)
     params = execution.params(params)
     cargs = tsfthreshold_cargs(params, execution)
     ret = tsfthreshold_outputs(params, execution)
@@ -286,6 +277,8 @@ def tsfthreshold(
     runner: Runner | None = None,
 ) -> TsfthresholdOutputs:
     """
+    tsfthreshold
+    
     Threshold and invert track scalar files.
     
     
@@ -319,8 +312,6 @@ def tsfthreshold(
     Returns:
         NamedTuple of outputs (described in `TsfthresholdOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(TSFTHRESHOLD_METADATA)
     params = tsfthreshold_params(
         invert=invert,
         info=info,
@@ -335,15 +326,14 @@ def tsfthreshold(
         t=t,
         output=output,
     )
-    return tsfthreshold_execute(params, execution)
+    return tsfthreshold_execute(params, runner)
 
 
 __all__ = [
     "TSFTHRESHOLD_METADATA",
-    "TsfthresholdConfigParameters",
     "TsfthresholdOutputs",
-    "TsfthresholdParameters",
     "tsfthreshold",
     "tsfthreshold_config_params",
+    "tsfthreshold_execute",
     "tsfthreshold_params",
 ]

niwrap_mrtrix/mrtrix/tsfvalidate.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 TSFVALIDATE_METADATA = Metadata(
-    id="e83163ab51d40cfca4549cbb01444f25cac2ebf1.boutiques",
+    id="113b8eae68aafc8fc670ca2774bb8cf075bd6e47.boutiques",
     name="tsfvalidate",
     package="mrtrix",
     container_image_tag="mrtrix3/mrtrix3:3.0.4",
@@ -14,14 +14,32 @@ TSFVALIDATE_METADATA = Metadata(
 
 
 TsfvalidateConfigParameters = typing.TypedDict('TsfvalidateConfigParameters', {
-    "__STYXTYPE__": typing.Literal["config"],
+    "@type": typing.NotRequired[typing.Literal["config"]],
+    "key": str,
+    "value": str,
+})
+TsfvalidateConfigParametersTagged = typing.TypedDict('TsfvalidateConfigParametersTagged', {
+    "@type": typing.Literal["config"],
     "key": str,
     "value": str,
 })
 
 
 TsfvalidateParameters = typing.TypedDict('TsfvalidateParameters', {
-    "__STYXTYPE__": typing.Literal["tsfvalidate"],
+    "@type": typing.NotRequired[typing.Literal["mrtrix/tsfvalidate"]],
+    "info": bool,
+    "quiet": bool,
+    "debug": bool,
+    "force": bool,
+    "nthreads": typing.NotRequired[int | None],
+    "config": typing.NotRequired[list[TsfvalidateConfigParameters] | None],
+    "help": bool,
+    "version": bool,
+    "tsf": InputPathType,
+    "tracks": InputPathType,
+})
+TsfvalidateParametersTagged = typing.TypedDict('TsfvalidateParametersTagged', {
+    "@type": typing.Literal["mrtrix/tsfvalidate"],
     "info": bool,
     "quiet": bool,
     "debug": bool,
@@ -33,44 +51,12 @@ TsfvalidateParameters = typing.TypedDict('TsfvalidateParameters', {
     "tsf": InputPathType,
     "tracks": InputPathType,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "tsfvalidate": tsfvalidate_cargs,
-        "config": tsfvalidate_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 {
-    }.get(t)
 
 
 def tsfvalidate_config_params(
     key: str,
     value: str,
-) -> TsfvalidateConfigParameters:
+) -> TsfvalidateConfigParametersTagged:
     """
     Build parameters.
     
@@ -81,7 +67,7 @@ def tsfvalidate_config_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "config",
+        "@type": "config",
         "key": key,
         "value": value,
     }
@@ -103,14 +89,14 @@ def tsfvalidate_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 TsfvalidateOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `tsfvalidate(...)`.
+    Output object returned when calling `TsfvalidateParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -127,7 +113,7 @@ def tsfvalidate_params(
     config: list[TsfvalidateConfigParameters] | None = None,
     help_: bool = False,
     version: bool = False,
-) -> TsfvalidateParameters:
+) -> TsfvalidateParametersTagged:
     """
     Build parameters.
     
@@ -150,7 +136,7 @@ def tsfvalidate_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "tsfvalidate",
+        "@type": "mrtrix/tsfvalidate",
         "info": info,
         "quiet": quiet,
         "debug": debug,
@@ -182,27 +168,27 @@ def tsfvalidate_cargs(
     """
     cargs = []
     cargs.append("tsfvalidate")
-    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 [tsfvalidate_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("tsf")))
-    cargs.append(execution.input_file(params.get("tracks")))
+    cargs.append(execution.input_file(params.get("tsf", None)))
+    cargs.append(execution.input_file(params.get("tracks", None)))
     return cargs
 
 
@@ -227,9 +213,11 @@ def tsfvalidate_outputs(
 
 def tsfvalidate_execute(
     params: TsfvalidateParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> TsfvalidateOutputs:
     """
+    tsfvalidate
+    
     Validate a track scalar file against the corresponding track data.
     
     
@@ -244,10 +232,12 @@ def tsfvalidate_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `TsfvalidateOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(TSFVALIDATE_METADATA)
     params = execution.params(params)
     cargs = tsfvalidate_cargs(params, execution)
     ret = tsfvalidate_outputs(params, execution)
@@ -269,6 +259,8 @@ def tsfvalidate(
     runner: Runner | None = None,
 ) -> TsfvalidateOutputs:
     """
+    tsfvalidate
+    
     Validate a track scalar file against the corresponding track data.
     
     
@@ -300,8 +292,6 @@ def tsfvalidate(
     Returns:
         NamedTuple of outputs (described in `TsfvalidateOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(TSFVALIDATE_METADATA)
     params = tsfvalidate_params(
         info=info,
         quiet=quiet,
@@ -314,15 +304,14 @@ def tsfvalidate(
         tsf=tsf,
         tracks=tracks,
     )
-    return tsfvalidate_execute(params, execution)
+    return tsfvalidate_execute(params, runner)
 
 
 __all__ = [
     "TSFVALIDATE_METADATA",
-    "TsfvalidateConfigParameters",
     "TsfvalidateOutputs",
-    "TsfvalidateParameters",
     "tsfvalidate",
     "tsfvalidate_config_params",
+    "tsfvalidate_execute",
     "tsfvalidate_params",
 ]