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

niwrap_mrtrix/mrtrix/warpinit.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 WARPINIT_METADATA = Metadata(
-    id="8d80b9573339b70a44a4d9c060f4b3d6a7b83231.boutiques",
+    id="280e00eee2bd09c4c86c25af7d4cac9f4251a8af.boutiques",
     name="warpinit",
     package="mrtrix",
     container_image_tag="mrtrix3/mrtrix3:3.0.4",
@@ -14,14 +14,32 @@ WARPINIT_METADATA = Metadata(
 
 
 WarpinitConfigParameters = typing.TypedDict('WarpinitConfigParameters', {
-    "__STYXTYPE__": typing.Literal["config"],
+    "@type": typing.NotRequired[typing.Literal["config"]],
+    "key": str,
+    "value": str,
+})
+WarpinitConfigParametersTagged = typing.TypedDict('WarpinitConfigParametersTagged', {
+    "@type": typing.Literal["config"],
     "key": str,
     "value": str,
 })
 
 
 WarpinitParameters = typing.TypedDict('WarpinitParameters', {
-    "__STYXTYPE__": typing.Literal["warpinit"],
+    "@type": typing.NotRequired[typing.Literal["mrtrix/warpinit"]],
+    "info": bool,
+    "quiet": bool,
+    "debug": bool,
+    "force": bool,
+    "nthreads": typing.NotRequired[int | None],
+    "config": typing.NotRequired[list[WarpinitConfigParameters] | None],
+    "help": bool,
+    "version": bool,
+    "template": InputPathType,
+    "warp": str,
+})
+WarpinitParametersTagged = typing.TypedDict('WarpinitParametersTagged', {
+    "@type": typing.Literal["mrtrix/warpinit"],
     "info": bool,
     "quiet": bool,
     "debug": bool,
@@ -33,45 +51,12 @@ WarpinitParameters = typing.TypedDict('WarpinitParameters', {
     "template": InputPathType,
     "warp": str,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "warpinit": warpinit_cargs,
-        "config": warpinit_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 {
-        "warpinit": warpinit_outputs,
-    }.get(t)
 
 
 def warpinit_config_params(
     key: str,
     value: str,
-) -> WarpinitConfigParameters:
+) -> WarpinitConfigParametersTagged:
     """
     Build parameters.
     
@@ -82,7 +67,7 @@ def warpinit_config_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "config",
+        "@type": "config",
         "key": key,
         "value": value,
     }
@@ -104,14 +89,14 @@ def warpinit_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 WarpinitOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `warpinit(...)`.
+    Output object returned when calling `WarpinitParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -130,7 +115,7 @@ def warpinit_params(
     config: list[WarpinitConfigParameters] | None = None,
     help_: bool = False,
     version: bool = False,
-) -> WarpinitParameters:
+) -> WarpinitParametersTagged:
     """
     Build parameters.
     
@@ -153,7 +138,7 @@ def warpinit_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "warpinit",
+        "@type": "mrtrix/warpinit",
         "info": info,
         "quiet": quiet,
         "debug": debug,
@@ -185,27 +170,27 @@ def warpinit_cargs(
     """
     cargs = []
     cargs.append("warpinit")
-    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 [warpinit_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("template")))
-    cargs.append(params.get("warp"))
+    cargs.append(execution.input_file(params.get("template", None)))
+    cargs.append(params.get("warp", None))
     return cargs
 
 
@@ -224,16 +209,18 @@ def warpinit_outputs(
     """
     ret = WarpinitOutputs(
         root=execution.output_file("."),
-        warp=execution.output_file(params.get("warp")),
+        warp=execution.output_file(params.get("warp", None)),
     )
     return ret
 
 
 def warpinit_execute(
     params: WarpinitParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> WarpinitOutputs:
     """
+    warpinit
+    
     Create an initial warp image, representing an identity transformation.
     
     This is useful to obtain the warp fields from other normalisation
@@ -260,10 +247,12 @@ def warpinit_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `WarpinitOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(WARPINIT_METADATA)
     params = execution.params(params)
     cargs = warpinit_cargs(params, execution)
     ret = warpinit_outputs(params, execution)
@@ -285,6 +274,8 @@ def warpinit(
     runner: Runner | None = None,
 ) -> WarpinitOutputs:
     """
+    warpinit
+    
     Create an initial warp image, representing an identity transformation.
     
     This is useful to obtain the warp fields from other normalisation
@@ -328,8 +319,6 @@ def warpinit(
     Returns:
         NamedTuple of outputs (described in `WarpinitOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(WARPINIT_METADATA)
     params = warpinit_params(
         info=info,
         quiet=quiet,
@@ -342,15 +331,14 @@ def warpinit(
         template=template,
         warp=warp,
     )
-    return warpinit_execute(params, execution)
+    return warpinit_execute(params, runner)
 
 
 __all__ = [
     "WARPINIT_METADATA",
-    "WarpinitConfigParameters",
     "WarpinitOutputs",
-    "WarpinitParameters",
     "warpinit",
     "warpinit_config_params",
+    "warpinit_execute",
     "warpinit_params",
 ]

niwrap_mrtrix/mrtrix/warpinvert.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 WARPINVERT_METADATA = Metadata(
-    id="f3a20aeefbc1d48a0c5c2320a9ad61ef6bb94f89.boutiques",
+    id="fe11b023d17d8a482f4f095709c5fdc089416cc2.boutiques",
     name="warpinvert",
     package="mrtrix",
     container_image_tag="mrtrix3/mrtrix3:3.0.4",
@@ -14,14 +14,34 @@ WARPINVERT_METADATA = Metadata(
 
 
 WarpinvertConfigParameters = typing.TypedDict('WarpinvertConfigParameters', {
-    "__STYXTYPE__": typing.Literal["config"],
+    "@type": typing.NotRequired[typing.Literal["config"]],
+    "key": str,
+    "value": str,
+})
+WarpinvertConfigParametersTagged = typing.TypedDict('WarpinvertConfigParametersTagged', {
+    "@type": typing.Literal["config"],
     "key": str,
     "value": str,
 })
 
 
 WarpinvertParameters = typing.TypedDict('WarpinvertParameters', {
-    "__STYXTYPE__": typing.Literal["warpinvert"],
+    "@type": typing.NotRequired[typing.Literal["mrtrix/warpinvert"]],
+    "template": typing.NotRequired[InputPathType | None],
+    "displacement": bool,
+    "info": bool,
+    "quiet": bool,
+    "debug": bool,
+    "force": bool,
+    "nthreads": typing.NotRequired[int | None],
+    "config": typing.NotRequired[list[WarpinvertConfigParameters] | None],
+    "help": bool,
+    "version": bool,
+    "in": InputPathType,
+    "out": str,
+})
+WarpinvertParametersTagged = typing.TypedDict('WarpinvertParametersTagged', {
+    "@type": typing.Literal["mrtrix/warpinvert"],
     "template": typing.NotRequired[InputPathType | None],
     "displacement": bool,
     "info": bool,
@@ -35,45 +55,12 @@ WarpinvertParameters = typing.TypedDict('WarpinvertParameters', {
     "in": InputPathType,
     "out": str,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "warpinvert": warpinvert_cargs,
-        "config": warpinvert_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 {
-        "warpinvert": warpinvert_outputs,
-    }.get(t)
 
 
 def warpinvert_config_params(
     key: str,
     value: str,
-) -> WarpinvertConfigParameters:
+) -> WarpinvertConfigParametersTagged:
     """
     Build parameters.
     
@@ -84,7 +71,7 @@ def warpinvert_config_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "config",
+        "@type": "config",
         "key": key,
         "value": value,
     }
@@ -106,14 +93,14 @@ def warpinvert_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 WarpinvertOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `warpinvert(...)`.
+    Output object returned when calling `WarpinvertParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -134,7 +121,7 @@ def warpinvert_params(
     config: list[WarpinvertConfigParameters] | None = None,
     help_: bool = False,
     version: bool = False,
-) -> WarpinvertParameters:
+) -> WarpinvertParametersTagged:
     """
     Build parameters.
     
@@ -160,7 +147,7 @@ def warpinvert_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "warpinvert",
+        "@type": "mrtrix/warpinvert",
         "displacement": displacement,
         "info": info,
         "quiet": quiet,
@@ -195,34 +182,34 @@ def warpinvert_cargs(
     """
     cargs = []
     cargs.append("warpinvert")
-    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("displacement"):
+    if params.get("displacement", False):
         cargs.append("-displacement")
-    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 [warpinvert_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("in")))
-    cargs.append(params.get("out"))
+    cargs.append(execution.input_file(params.get("in", None)))
+    cargs.append(params.get("out", None))
     return cargs
 
 
@@ -241,16 +228,18 @@ def warpinvert_outputs(
     """
     ret = WarpinvertOutputs(
         root=execution.output_file("."),
-        out=execution.output_file(params.get("out")),
+        out=execution.output_file(params.get("out", None)),
     )
     return ret
 
 
 def warpinvert_execute(
     params: WarpinvertParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> WarpinvertOutputs:
     """
+    warpinvert
+    
     Invert a non-linear warp field.
     
     By default, this command assumes that the input warp field is a deformation
@@ -272,10 +261,12 @@ def warpinvert_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `WarpinvertOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(WARPINVERT_METADATA)
     params = execution.params(params)
     cargs = warpinvert_cargs(params, execution)
     ret = warpinvert_outputs(params, execution)
@@ -299,6 +290,8 @@ def warpinvert(
     runner: Runner | None = None,
 ) -> WarpinvertOutputs:
     """
+    warpinvert
+    
     Invert a non-linear warp field.
     
     By default, this command assumes that the input warp field is a deformation
@@ -340,8 +333,6 @@ def warpinvert(
     Returns:
         NamedTuple of outputs (described in `WarpinvertOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(WARPINVERT_METADATA)
     params = warpinvert_params(
         template=template,
         displacement=displacement,
@@ -356,15 +347,14 @@ def warpinvert(
         in_=in_,
         out=out,
     )
-    return warpinvert_execute(params, execution)
+    return warpinvert_execute(params, runner)
 
 
 __all__ = [
     "WARPINVERT_METADATA",
-    "WarpinvertConfigParameters",
     "WarpinvertOutputs",
-    "WarpinvertParameters",
     "warpinvert",
     "warpinvert_config_params",
+    "warpinvert_execute",
     "warpinvert_params",
 ]

niwrap_mrtrix-0.7.0.dist-info/METADATA

@@ -0,0 +1,8 @@
+Metadata-Version: 2.4
+Name: niwrap-mrtrix
+Version: 0.7.0
+Summary: Neuroimaging wrappers.
+Author: CMI DAIR
+License-Expression: MIT
+Requires-Dist: styxdefs>=0.5.0,<0.6.0
+Requires-Python: >=3.10

niwrap_mrtrix-0.7.0.dist-info/RECORD

@@ -0,0 +1,119 @@
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niwrap_mrtrix-0.7.0.dist-info/WHEEL

@@ -0,0 +1,4 @@
+Wheel-Version: 1.0
+Generator: uv 0.8.24
+Root-Is-Purelib: true
+Tag: py3-none-any

niwrap_mrtrix-0.6.3.dist-info/METADATA

@@ -1,8 +0,0 @@
-Metadata-Version: 2.4
-Name: niwrap_mrtrix
-Version: 0.6.3
-Summary: NiWrap wrappers for MRTrix3.
-Author-email: CMI DAIR <dair@childmind.org>
-License-Expression: LGPL-2.1
-Requires-Python: >=3.10
-Requires-Dist: styxdefs~=0.5.0