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

niwrap_afni/afni/v__no_pound.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__NO_POUND_METADATA = Metadata(
-    id="88133483a9d0f5d50e88511e48d91b434472fbca.boutiques",
+    id="27f8bb2202412b345757d2c1eab5e9dabb8d26fc.boutiques",
     name="@NoPound",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,45 +14,18 @@ V__NO_POUND_METADATA = Metadata(
 
 
 VNoPoundParameters = typing.TypedDict('VNoPoundParameters', {
-    "__STYXTYPE__": typing.Literal["@NoPound"],
+    "@type": typing.NotRequired[typing.Literal["afni/@NoPound"]],
+    "afni_files": list[str],
+})
+VNoPoundParametersTagged = typing.TypedDict('VNoPoundParametersTagged', {
+    "@type": typing.Literal["afni/@NoPound"],
     "afni_files": list[str],
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "@NoPound": v__no_pound_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 VNoPoundOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__no_pound(...)`.
+    Output object returned when calling `VNoPoundParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -60,7 +33,7 @@ class VNoPoundOutputs(typing.NamedTuple):
 
 def v__no_pound_params(
     afni_files: list[str],
-) -> VNoPoundParameters:
+) -> VNoPoundParametersTagged:
     """
     Build parameters.
     
@@ -71,7 +44,7 @@ def v__no_pound_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@NoPound",
+        "@type": "afni/@NoPound",
         "afni_files": afni_files,
     }
     return params
@@ -92,7 +65,7 @@ def v__no_pound_cargs(
     """
     cargs = []
     cargs.append("@NoPound")
-    cargs.extend(params.get("afni_files"))
+    cargs.extend(params.get("afni_files", None))
     return cargs
 
 
@@ -117,9 +90,11 @@ def v__no_pound_outputs(
 
 def v__no_pound_execute(
     params: VNoPoundParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VNoPoundOutputs:
     """
+    @NoPound
+    
     Replaces all # characters in AFNI filenames with a -.
     
     Author: AFNI Developers
@@ -128,10 +103,12 @@ def v__no_pound_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VNoPoundOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__NO_POUND_METADATA)
     params = execution.params(params)
     cargs = v__no_pound_cargs(params, execution)
     ret = v__no_pound_outputs(params, execution)
@@ -144,6 +121,8 @@ def v__no_pound(
     runner: Runner | None = None,
 ) -> VNoPoundOutputs:
     """
+    @NoPound
+    
     Replaces all # characters in AFNI filenames with a -.
     
     Author: AFNI Developers
@@ -157,18 +136,16 @@ def v__no_pound(
     Returns:
         NamedTuple of outputs (described in `VNoPoundOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__NO_POUND_METADATA)
     params = v__no_pound_params(
         afni_files=afni_files,
     )
-    return v__no_pound_execute(params, execution)
+    return v__no_pound_execute(params, runner)
 
 
 __all__ = [
     "VNoPoundOutputs",
-    "VNoPoundParameters",
     "V__NO_POUND_METADATA",
     "v__no_pound",
+    "v__no_pound_execute",
     "v__no_pound_params",
 ]

niwrap_afni/afni/v__noisy_skull_strip.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__NOISY_SKULL_STRIP_METADATA = Metadata(
-    id="e98b609b47a8089d945c591b91e1f67238f32e0b.boutiques",
+    id="e8c5e242c55a2b267d7a9de26d094a745d15af66.boutiques",
     name="@NoisySkullStrip",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,48 +14,22 @@ V__NOISY_SKULL_STRIP_METADATA = Metadata(
 
 
 VNoisySkullStripParameters = typing.TypedDict('VNoisySkullStripParameters', {
-    "__STYXTYPE__": typing.Literal["@NoisySkullStrip"],
+    "@type": typing.NotRequired[typing.Literal["afni/@NoisySkullStrip"]],
+    "input_file": InputPathType,
+    "keep_tmp": bool,
+    "3dskullstrip_opts": typing.NotRequired[str | None],
+})
+VNoisySkullStripParametersTagged = typing.TypedDict('VNoisySkullStripParametersTagged', {
+    "@type": typing.Literal["afni/@NoisySkullStrip"],
     "input_file": InputPathType,
     "keep_tmp": bool,
     "3dskullstrip_opts": typing.NotRequired[str | None],
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "@NoisySkullStrip": v__noisy_skull_strip_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 {
-        "@NoisySkullStrip": v__noisy_skull_strip_outputs,
-    }.get(t)
 
 
 class VNoisySkullStripOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__noisy_skull_strip(...)`.
+    Output object returned when calling `VNoisySkullStripParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -73,7 +47,7 @@ def v__noisy_skull_strip_params(
     input_file: InputPathType,
     keep_tmp: bool = False,
     v_3dskullstrip_opts: str | None = None,
-) -> VNoisySkullStripParameters:
+) -> VNoisySkullStripParametersTagged:
     """
     Build parameters.
     
@@ -86,7 +60,7 @@ def v__noisy_skull_strip_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@NoisySkullStrip",
+        "@type": "afni/@NoisySkullStrip",
         "input_file": input_file,
         "keep_tmp": keep_tmp,
     }
@@ -112,14 +86,14 @@ def v__noisy_skull_strip_cargs(
     cargs.append("@NoisySkullStrip")
     cargs.extend([
         "-input",
-        execution.input_file(params.get("input_file"))
+        execution.input_file(params.get("input_file", None))
     ])
-    if params.get("keep_tmp"):
+    if params.get("keep_tmp", False):
         cargs.append("-keep_tmp")
-    if params.get("3dskullstrip_opts") is not None:
+    if params.get("3dskullstrip_opts", None) is not None:
         cargs.extend([
             "-3dSkullStrip_opts",
-            params.get("3dskullstrip_opts")
+            params.get("3dskullstrip_opts", None)
         ])
     return cargs
 
@@ -139,19 +113,21 @@ def v__noisy_skull_strip_outputs(
     """
     ret = VNoisySkullStripOutputs(
         root=execution.output_file("."),
-        anat_ns=execution.output_file(pathlib.Path(params.get("input_file")).name + ".ns"),
-        anat_air=execution.output_file(pathlib.Path(params.get("input_file")).name + ".air"),
-        anat_skl=execution.output_file(pathlib.Path(params.get("input_file")).name + ".skl"),
-        anat_lsp=execution.output_file(pathlib.Path(params.get("input_file")).name + ".lsp"),
+        anat_ns=execution.output_file(pathlib.Path(params.get("input_file", None)).name + ".ns"),
+        anat_air=execution.output_file(pathlib.Path(params.get("input_file", None)).name + ".air"),
+        anat_skl=execution.output_file(pathlib.Path(params.get("input_file", None)).name + ".skl"),
+        anat_lsp=execution.output_file(pathlib.Path(params.get("input_file", None)).name + ".lsp"),
     )
     return ret
 
 
 def v__noisy_skull_strip_execute(
     params: VNoisySkullStripParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VNoisySkullStripOutputs:
     """
+    @NoisySkullStrip
+    
     Strips the skull of anatomical datasets with low SNR.
     
     Author: AFNI Developers
@@ -160,10 +136,12 @@ def v__noisy_skull_strip_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VNoisySkullStripOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__NOISY_SKULL_STRIP_METADATA)
     params = execution.params(params)
     cargs = v__noisy_skull_strip_cargs(params, execution)
     ret = v__noisy_skull_strip_outputs(params, execution)
@@ -178,6 +156,8 @@ def v__noisy_skull_strip(
     runner: Runner | None = None,
 ) -> VNoisySkullStripOutputs:
     """
+    @NoisySkullStrip
+    
     Strips the skull of anatomical datasets with low SNR.
     
     Author: AFNI Developers
@@ -193,20 +173,18 @@ def v__noisy_skull_strip(
     Returns:
         NamedTuple of outputs (described in `VNoisySkullStripOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__NOISY_SKULL_STRIP_METADATA)
     params = v__noisy_skull_strip_params(
         input_file=input_file,
         keep_tmp=keep_tmp,
         v_3dskullstrip_opts=v_3dskullstrip_opts,
     )
-    return v__noisy_skull_strip_execute(params, execution)
+    return v__noisy_skull_strip_execute(params, runner)
 
 
 __all__ = [
     "VNoisySkullStripOutputs",
-    "VNoisySkullStripParameters",
     "V__NOISY_SKULL_STRIP_METADATA",
     "v__noisy_skull_strip",
+    "v__noisy_skull_strip_execute",
     "v__noisy_skull_strip_params",
 ]

niwrap_afni/afni/v__np.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__NP_METADATA = Metadata(
-    id="eeda44fa5bee1551ed881a09b3fe0993544de8ca.boutiques",
+    id="e1601c4ceba24e5c7de18ff906554e637f17df03.boutiques",
     name="@np",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,46 +14,18 @@ V__NP_METADATA = Metadata(
 
 
 VNpParameters = typing.TypedDict('VNpParameters', {
-    "__STYXTYPE__": typing.Literal["@np"],
+    "@type": typing.NotRequired[typing.Literal["afni/@np"]],
+    "prefix": str,
+})
+VNpParametersTagged = typing.TypedDict('VNpParametersTagged', {
+    "@type": typing.Literal["afni/@np"],
     "prefix": str,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "@np": v__np_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 {
-        "@np": v__np_outputs,
-    }.get(t)
 
 
 class VNpOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__np(...)`.
+    Output object returned when calling `VNpParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -63,7 +35,7 @@ class VNpOutputs(typing.NamedTuple):
 
 def v__np_params(
     prefix: str,
-) -> VNpParameters:
+) -> VNpParametersTagged:
     """
     Build parameters.
     
@@ -73,7 +45,7 @@ def v__np_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@np",
+        "@type": "afni/@np",
         "prefix": prefix,
     }
     return params
@@ -94,7 +66,7 @@ def v__np_cargs(
     """
     cargs = []
     cargs.append("@np")
-    cargs.append(params.get("prefix"))
+    cargs.append(params.get("prefix", None))
     return cargs
 
 
@@ -120,12 +92,15 @@ def v__np_outputs(
 
 def v__np_execute(
     params: VNpParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VNpOutputs:
     """
-    Finds an appropriate new prefix to use, given the files you already have in your
-    directory. It automatically creates a valid prefix when you are repeatedly
-    running similar commands but do not want to delete previous output.
+    @np
+    
+    Finds an appropriate new prefix to use, given the files you already have in
+    your directory. It automatically creates a valid prefix when you are
+    repeatedly running similar commands but do not want to delete previous
+    output.
     
     Author: AFNI Developers
     
@@ -133,10 +108,12 @@ def v__np_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VNpOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__NP_METADATA)
     params = execution.params(params)
     cargs = v__np_cargs(params, execution)
     ret = v__np_outputs(params, execution)
@@ -149,9 +126,12 @@ def v__np(
     runner: Runner | None = None,
 ) -> VNpOutputs:
     """
-    Finds an appropriate new prefix to use, given the files you already have in your
-    directory. It automatically creates a valid prefix when you are repeatedly
-    running similar commands but do not want to delete previous output.
+    @np
+    
+    Finds an appropriate new prefix to use, given the files you already have in
+    your directory. It automatically creates a valid prefix when you are
+    repeatedly running similar commands but do not want to delete previous
+    output.
     
     Author: AFNI Developers
     
@@ -163,18 +143,16 @@ def v__np(
     Returns:
         NamedTuple of outputs (described in `VNpOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__NP_METADATA)
     params = v__np_params(
         prefix=prefix,
     )
-    return v__np_execute(params, execution)
+    return v__np_execute(params, runner)
 
 
 __all__ = [
     "VNpOutputs",
-    "VNpParameters",
     "V__NP_METADATA",
     "v__np",
+    "v__np_execute",
     "v__np_params",
 ]

niwrap_afni/afni/v__parse_afni_name.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__PARSE_AFNI_NAME_METADATA = Metadata(
-    id="77b207b29d926238300645b41fc4c5e89f1b41c6.boutiques",
+    id="f4c06e2ac839984a80a47e169a89027f909df950.boutiques",
     name="@parse_afni_name",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,46 +14,18 @@ V__PARSE_AFNI_NAME_METADATA = Metadata(
 
 
 VParseAfniNameParameters = typing.TypedDict('VParseAfniNameParameters', {
-    "__STYXTYPE__": typing.Literal["@parse_afni_name"],
+    "@type": typing.NotRequired[typing.Literal["afni/@parse_afni_name"]],
+    "afni_name": str,
+})
+VParseAfniNameParametersTagged = typing.TypedDict('VParseAfniNameParametersTagged', {
+    "@type": typing.Literal["afni/@parse_afni_name"],
     "afni_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 {
-        "@parse_afni_name": v__parse_afni_name_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 {
-        "@parse_afni_name": v__parse_afni_name_outputs,
-    }.get(t)
 
 
 class VParseAfniNameOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__parse_afni_name(...)`.
+    Output object returned when calling `VParseAfniNameParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -69,7 +41,7 @@ class VParseAfniNameOutputs(typing.NamedTuple):
 
 def v__parse_afni_name_params(
     afni_name: str,
-) -> VParseAfniNameParameters:
+) -> VParseAfniNameParametersTagged:
     """
     Build parameters.
     
@@ -79,7 +51,7 @@ def v__parse_afni_name_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@parse_afni_name",
+        "@type": "afni/@parse_afni_name",
         "afni_name": afni_name,
     }
     return params
@@ -100,7 +72,7 @@ def v__parse_afni_name_cargs(
     """
     cargs = []
     cargs.append("@parse_afni_name")
-    cargs.append(params.get("afni_name"))
+    cargs.append(params.get("afni_name", None))
     return cargs
 
 
@@ -129,11 +101,13 @@ def v__parse_afni_name_outputs(
 
 def v__parse_afni_name_execute(
     params: VParseAfniNameParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VParseAfniNameOutputs:
     """
-    A script to parse an AFNI name, outputting the path, prefix, view, and sub-brick
-    selection string.
+    @parse_afni_name
+    
+    A script to parse an AFNI name, outputting the path, prefix, view, and
+    sub-brick selection string.
     
     Author: AFNI Developers
     
@@ -141,10 +115,12 @@ def v__parse_afni_name_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VParseAfniNameOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__PARSE_AFNI_NAME_METADATA)
     params = execution.params(params)
     cargs = v__parse_afni_name_cargs(params, execution)
     ret = v__parse_afni_name_outputs(params, execution)
@@ -157,8 +133,10 @@ def v__parse_afni_name(
     runner: Runner | None = None,
 ) -> VParseAfniNameOutputs:
     """
-    A script to parse an AFNI name, outputting the path, prefix, view, and sub-brick
-    selection string.
+    @parse_afni_name
+    
+    A script to parse an AFNI name, outputting the path, prefix, view, and
+    sub-brick selection string.
     
     Author: AFNI Developers
     
@@ -170,18 +148,16 @@ def v__parse_afni_name(
     Returns:
         NamedTuple of outputs (described in `VParseAfniNameOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__PARSE_AFNI_NAME_METADATA)
     params = v__parse_afni_name_params(
         afni_name=afni_name,
     )
-    return v__parse_afni_name_execute(params, execution)
+    return v__parse_afni_name_execute(params, runner)
 
 
 __all__ = [
     "VParseAfniNameOutputs",
-    "VParseAfniNameParameters",
     "V__PARSE_AFNI_NAME_METADATA",
     "v__parse_afni_name",
+    "v__parse_afni_name_execute",
     "v__parse_afni_name_params",
 ]