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

niwrap_afni/afni/v__purify_1_d.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__PURIFY_1_D_METADATA = Metadata(
-    id="f151d6221d30e4482e4401cc1da254b8c8b2ea5b.boutiques",
+    id="44dc7948cc70d81d23a3f0c26fd0b92feb963b41.boutiques",
     name="@Purify_1D",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,47 +14,22 @@ V__PURIFY_1_D_METADATA = Metadata(
 
 
 VPurify1DParameters = typing.TypedDict('VPurify1DParameters', {
-    "__STYXTYPE__": typing.Literal["@Purify_1D"],
+    "@type": typing.NotRequired[typing.Literal["afni/@Purify_1D"]],
+    "sub_brick": typing.NotRequired[str | None],
+    "suffix": typing.NotRequired[str | None],
+    "input_files": list[InputPathType],
+})
+VPurify1DParametersTagged = typing.TypedDict('VPurify1DParametersTagged', {
+    "@type": typing.Literal["afni/@Purify_1D"],
     "sub_brick": typing.NotRequired[str | None],
     "suffix": typing.NotRequired[str | None],
     "input_files": list[InputPathType],
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "@Purify_1D": v__purify_1_d_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 VPurify1DOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__purify_1_d(...)`.
+    Output object returned when calling `VPurify1DParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -64,7 +39,7 @@ def v__purify_1_d_params(
     input_files: list[InputPathType],
     sub_brick: str | None = None,
     suffix: str | None = None,
-) -> VPurify1DParameters:
+) -> VPurify1DParametersTagged:
     """
     Build parameters.
     
@@ -78,7 +53,7 @@ def v__purify_1_d_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@Purify_1D",
+        "@type": "afni/@Purify_1D",
         "input_files": input_files,
     }
     if sub_brick is not None:
@@ -103,17 +78,17 @@ def v__purify_1_d_cargs(
     """
     cargs = []
     cargs.append("@Purify_1D")
-    if params.get("sub_brick") is not None:
+    if params.get("sub_brick", None) is not None:
         cargs.extend([
             "-sub",
-            params.get("sub_brick")
+            params.get("sub_brick", None)
         ])
-    if params.get("suffix") is not None:
+    if params.get("suffix", None) is not None:
         cargs.extend([
             "-suf",
-            params.get("suffix")
+            params.get("suffix", None)
         ])
-    cargs.extend([execution.input_file(f) for f in params.get("input_files")])
+    cargs.extend([execution.input_file(f) for f in params.get("input_files", None)])
     return cargs
 
 
@@ -138,9 +113,11 @@ def v__purify_1_d_outputs(
 
 def v__purify_1_d_execute(
     params: VPurify1DParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VPurify1DOutputs:
     """
+    @Purify_1D
+    
     Purifies a series of 1D files for faster I/O into matlab.
     
     Author: AFNI Developers
@@ -149,10 +126,12 @@ def v__purify_1_d_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VPurify1DOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__PURIFY_1_D_METADATA)
     params = execution.params(params)
     cargs = v__purify_1_d_cargs(params, execution)
     ret = v__purify_1_d_outputs(params, execution)
@@ -167,6 +146,8 @@ def v__purify_1_d(
     runner: Runner | None = None,
 ) -> VPurify1DOutputs:
     """
+    @Purify_1D
+    
     Purifies a series of 1D files for faster I/O into matlab.
     
     Author: AFNI Developers
@@ -183,20 +164,18 @@ def v__purify_1_d(
     Returns:
         NamedTuple of outputs (described in `VPurify1DOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__PURIFY_1_D_METADATA)
     params = v__purify_1_d_params(
         sub_brick=sub_brick,
         suffix=suffix,
         input_files=input_files,
     )
-    return v__purify_1_d_execute(params, execution)
+    return v__purify_1_d_execute(params, runner)
 
 
 __all__ = [
     "VPurify1DOutputs",
-    "VPurify1DParameters",
     "V__PURIFY_1_D_METADATA",
     "v__purify_1_d",
+    "v__purify_1_d_execute",
     "v__purify_1_d_params",
 ]

niwrap_afni/afni/v__quiet_talkers.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__QUIET_TALKERS_METADATA = Metadata(
-    id="82edcbc7b6fffaa345b1e5d59fe730b7ca9bd87f.boutiques",
+    id="00c6dc29db0aef0f99749f24573a4ed8e3adfda3.boutiques",
     name="@Quiet_Talkers",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,7 +14,18 @@ V__QUIET_TALKERS_METADATA = Metadata(
 
 
 VQuietTalkersParameters = typing.TypedDict('VQuietTalkersParameters', {
-    "__STYXTYPE__": typing.Literal["@Quiet_Talkers"],
+    "@type": typing.NotRequired[typing.Literal["afni/@Quiet_Talkers"]],
+    "sudo": bool,
+    "prog": typing.NotRequired[list[str] | None],
+    "npb_val": typing.NotRequired[list[float] | None],
+    "npb_range": typing.NotRequired[list[float] | None],
+    "pif_key": typing.NotRequired[str | None],
+    "no_npb": bool,
+    "list": bool,
+    "quiet": bool,
+})
+VQuietTalkersParametersTagged = typing.TypedDict('VQuietTalkersParametersTagged', {
+    "@type": typing.Literal["afni/@Quiet_Talkers"],
     "sudo": bool,
     "prog": typing.NotRequired[list[str] | None],
     "npb_val": typing.NotRequired[list[float] | None],
@@ -24,42 +35,11 @@ VQuietTalkersParameters = typing.TypedDict('VQuietTalkersParameters', {
     "list": bool,
     "quiet": bool,
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "@Quiet_Talkers": v__quiet_talkers_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 VQuietTalkersOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__quiet_talkers(...)`.
+    Output object returned when calling `VQuietTalkersParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -74,7 +54,7 @@ def v__quiet_talkers_params(
     no_npb: bool = False,
     list_: bool = False,
     quiet: bool = False,
-) -> VQuietTalkersParameters:
+) -> VQuietTalkersParametersTagged:
     """
     Build parameters.
     
@@ -93,7 +73,7 @@ def v__quiet_talkers_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@Quiet_Talkers",
+        "@type": "afni/@Quiet_Talkers",
         "sudo": sudo,
         "no_npb": no_npb,
         "list": list_,
@@ -125,33 +105,33 @@ def v__quiet_talkers_cargs(
     """
     cargs = []
     cargs.append("@Quiet_Talkers")
-    if params.get("sudo"):
+    if params.get("sudo", False):
         cargs.append("-sudo")
-    if params.get("prog") is not None:
+    if params.get("prog", None) is not None:
         cargs.extend([
             "-prog",
-            *params.get("prog")
+            *params.get("prog", None)
         ])
-    if params.get("npb_val") is not None:
+    if params.get("npb_val", None) is not None:
         cargs.extend([
             "-npb_val",
-            *map(str, params.get("npb_val"))
+            *map(str, params.get("npb_val", None))
         ])
-    if params.get("npb_range") is not None:
+    if params.get("npb_range", None) is not None:
         cargs.extend([
             "-npb_range",
-            *map(str, params.get("npb_range"))
+            *map(str, params.get("npb_range", None))
         ])
-    if params.get("pif_key") is not None:
+    if params.get("pif_key", None) is not None:
         cargs.extend([
             "-pif",
-            params.get("pif_key")
+            params.get("pif_key", None)
         ])
-    if params.get("no_npb"):
+    if params.get("no_npb", False):
         cargs.append("-no_npb")
-    if params.get("list"):
+    if params.get("list", False):
         cargs.append("-list")
-    if params.get("quiet"):
+    if params.get("quiet", False):
         cargs.append("-quiet")
     return cargs
 
@@ -177,9 +157,11 @@ def v__quiet_talkers_outputs(
 
 def v__quiet_talkers_execute(
     params: VQuietTalkersParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VQuietTalkersOutputs:
     """
+    @Quiet_Talkers
+    
     A script to find and kill AFNI processes.
     
     Author: AFNI Developers
@@ -188,10 +170,12 @@ def v__quiet_talkers_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VQuietTalkersOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__QUIET_TALKERS_METADATA)
     params = execution.params(params)
     cargs = v__quiet_talkers_cargs(params, execution)
     ret = v__quiet_talkers_outputs(params, execution)
@@ -211,6 +195,8 @@ def v__quiet_talkers(
     runner: Runner | None = None,
 ) -> VQuietTalkersOutputs:
     """
+    @Quiet_Talkers
+    
     A script to find and kill AFNI processes.
     
     Author: AFNI Developers
@@ -232,8 +218,6 @@ def v__quiet_talkers(
     Returns:
         NamedTuple of outputs (described in `VQuietTalkersOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__QUIET_TALKERS_METADATA)
     params = v__quiet_talkers_params(
         sudo=sudo,
         prog=prog,
@@ -244,13 +228,13 @@ def v__quiet_talkers(
         list_=list_,
         quiet=quiet,
     )
-    return v__quiet_talkers_execute(params, execution)
+    return v__quiet_talkers_execute(params, runner)
 
 
 __all__ = [
     "VQuietTalkersOutputs",
-    "VQuietTalkersParameters",
     "V__QUIET_TALKERS_METADATA",
     "v__quiet_talkers",
+    "v__quiet_talkers_execute",
     "v__quiet_talkers_params",
 ]

niwrap_afni/afni/v__radial_correlate.py

@@ -6,7 +6,7 @@ import pathlib
 from styxdefs import *
 
 V__RADIAL_CORRELATE_METADATA = Metadata(
-    id="0864ffc94296f3c83a9716405be98eb83c332604.boutiques",
+    id="5487acf3efc87dd7d0a2394d13d967b2af4422ba.boutiques",
     name="@radial_correlate",
     package="afni",
     container_image_tag="afni/afni_make_build:AFNI_24.2.06",
@@ -14,7 +14,30 @@ V__RADIAL_CORRELATE_METADATA = Metadata(
 
 
 VRadialCorrelateParameters = typing.TypedDict('VRadialCorrelateParameters', {
-    "__STYXTYPE__": typing.Literal["@radial_correlate"],
+    "@type": typing.NotRequired[typing.Literal["afni/@radial_correlate"]],
+    "input_files": list[InputPathType],
+    "results_dir": typing.NotRequired[str | None],
+    "do_corr": typing.NotRequired[str | None],
+    "do_clust": typing.NotRequired[str | None],
+    "mask_dset": typing.NotRequired[InputPathType | None],
+    "cthresh": typing.NotRequired[float | None],
+    "frac_limit": typing.NotRequired[float | None],
+    "sphere_rad": typing.NotRequired[float | None],
+    "use_3dmerge": typing.NotRequired[str | None],
+    "percentile": typing.NotRequired[float | None],
+    "min_thr": typing.NotRequired[float | None],
+    "nfirst": typing.NotRequired[float | None],
+    "ver": bool,
+    "verbose": bool,
+    "help": bool,
+    "hist": bool,
+    "corr_mask": typing.NotRequired[str | None],
+    "do_clean": typing.NotRequired[str | None],
+    "polort": typing.NotRequired[float | None],
+    "merge_frad": typing.NotRequired[float | None],
+})
+VRadialCorrelateParametersTagged = typing.TypedDict('VRadialCorrelateParametersTagged', {
+    "@type": typing.Literal["afni/@radial_correlate"],
     "input_files": list[InputPathType],
     "results_dir": typing.NotRequired[str | None],
     "do_corr": typing.NotRequired[str | None],
@@ -36,43 +59,11 @@ VRadialCorrelateParameters = typing.TypedDict('VRadialCorrelateParameters', {
     "polort": typing.NotRequired[float | None],
     "merge_frad": typing.NotRequired[float | None],
 })
-
-
-def dyn_cargs(
-    t: str,
-) -> typing.Any:
-    """
-    Get build cargs function by command type.
-    
-    Args:
-        t: Command type.
-    Returns:
-        Build cargs function.
-    """
-    return {
-        "@radial_correlate": v__radial_correlate_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 {
-        "@radial_correlate": v__radial_correlate_outputs,
-    }.get(t)
 
 
 class VRadialCorrelateOutputs(typing.NamedTuple):
     """
-    Output object returned when calling `v__radial_correlate(...)`.
+    Output object returned when calling `VRadialCorrelateParameters(...)`.
     """
     root: OutputPathType
     """Output root folder. This is the root folder for all outputs."""
@@ -101,7 +92,7 @@ def v__radial_correlate_params(
     do_clean: str | None = None,
     polort: float | None = None,
     merge_frad: float | None = None,
-) -> VRadialCorrelateParameters:
+) -> VRadialCorrelateParametersTagged:
     """
     Build parameters.
     
@@ -130,7 +121,7 @@ def v__radial_correlate_params(
         Parameter dictionary
     """
     params = {
-        "__STYXTYPE__": "@radial_correlate",
+        "@type": "afni/@radial_correlate",
         "input_files": input_files,
         "ver": ver,
         "verbose": verbose,
@@ -185,89 +176,89 @@ def v__radial_correlate_cargs(
     """
     cargs = []
     cargs.append("@radial_correlate")
-    cargs.extend([execution.input_file(f) for f in params.get("input_files")])
-    if params.get("results_dir") is not None:
+    cargs.extend([execution.input_file(f) for f in params.get("input_files", None)])
+    if params.get("results_dir", None) is not None:
         cargs.extend([
             "-rdir",
-            params.get("results_dir")
+            params.get("results_dir", None)
         ])
-    if params.get("do_corr") is not None:
+    if params.get("do_corr", None) is not None:
         cargs.extend([
             "-do_corr",
-            params.get("do_corr")
+            params.get("do_corr", None)
         ])
-    if params.get("do_clust") is not None:
+    if params.get("do_clust", None) is not None:
         cargs.extend([
             "-do_clust",
-            params.get("do_clust")
+            params.get("do_clust", None)
         ])
-    if params.get("mask_dset") is not None:
+    if params.get("mask_dset", None) is not None:
         cargs.extend([
             "-mask",
-            execution.input_file(params.get("mask_dset"))
+            execution.input_file(params.get("mask_dset", None))
         ])
-    if params.get("cthresh") is not None:
+    if params.get("cthresh", None) is not None:
         cargs.extend([
             "-cthresh",
-            str(params.get("cthresh"))
+            str(params.get("cthresh", None))
         ])
-    if params.get("frac_limit") is not None:
+    if params.get("frac_limit", None) is not None:
         cargs.extend([
             "-frac_limit",
-            str(params.get("frac_limit"))
+            str(params.get("frac_limit", None))
         ])
-    if params.get("sphere_rad") is not None:
+    if params.get("sphere_rad", None) is not None:
         cargs.extend([
             "-sphere_rad",
-            str(params.get("sphere_rad"))
+            str(params.get("sphere_rad", None))
         ])
-    if params.get("use_3dmerge") is not None:
+    if params.get("use_3dmerge", None) is not None:
         cargs.extend([
             "-use_3dmerge",
-            params.get("use_3dmerge")
+            params.get("use_3dmerge", None)
         ])
-    if params.get("percentile") is not None:
+    if params.get("percentile", None) is not None:
         cargs.extend([
             "-percentile",
-            str(params.get("percentile"))
+            str(params.get("percentile", None))
         ])
-    if params.get("min_thr") is not None:
+    if params.get("min_thr", None) is not None:
         cargs.extend([
             "-min_thr",
-            str(params.get("min_thr"))
+            str(params.get("min_thr", None))
         ])
-    if params.get("nfirst") is not None:
+    if params.get("nfirst", None) is not None:
         cargs.extend([
             "-nfirst",
-            str(params.get("nfirst"))
+            str(params.get("nfirst", None))
         ])
-    if params.get("ver"):
+    if params.get("ver", False):
         cargs.append("-ver")
-    if params.get("verbose"):
+    if params.get("verbose", False):
         cargs.append("-verb")
-    if params.get("help"):
+    if params.get("help", False):
         cargs.append("-help")
-    if params.get("hist"):
+    if params.get("hist", False):
         cargs.append("-hist")
-    if params.get("corr_mask") is not None:
+    if params.get("corr_mask", None) is not None:
         cargs.extend([
             "-corr_mask",
-            params.get("corr_mask")
+            params.get("corr_mask", None)
         ])
-    if params.get("do_clean") is not None:
+    if params.get("do_clean", None) is not None:
         cargs.extend([
             "-do_clean",
-            params.get("do_clean")
+            params.get("do_clean", None)
         ])
-    if params.get("polort") is not None:
+    if params.get("polort", None) is not None:
         cargs.extend([
             "-polort",
-            str(params.get("polort"))
+            str(params.get("polort", None))
         ])
-    if params.get("merge_frad") is not None:
+    if params.get("merge_frad", None) is not None:
         cargs.extend([
             "-merge_frad",
-            str(params.get("merge_frad"))
+            str(params.get("merge_frad", None))
         ])
     return cargs
 
@@ -287,16 +278,18 @@ def v__radial_correlate_outputs(
     """
     ret = VRadialCorrelateOutputs(
         root=execution.output_file("."),
-        corr_volumes=execution.output_file(params.get("results_dir") + "/correlation_volumes") if (params.get("results_dir") is not None) else None,
+        corr_volumes=execution.output_file(params.get("results_dir", None) + "/correlation_volumes") if (params.get("results_dir") is not None) else None,
     )
     return ret
 
 
 def v__radial_correlate_execute(
     params: VRadialCorrelateParameters,
-    execution: Execution,
+    runner: Runner | None = None,
 ) -> VRadialCorrelateOutputs:
     """
+    @radial_correlate
+    
     Check datasets for correlation artifacts.
     
     Author: AFNI Developers
@@ -305,10 +298,12 @@ def v__radial_correlate_execute(
     
     Args:
         params: The parameters.
-        execution: The execution object.
+        runner: Command runner.
     Returns:
         NamedTuple of outputs (described in `VRadialCorrelateOutputs`).
     """
+    runner = runner or get_global_runner()
+    execution = runner.start_execution(V__RADIAL_CORRELATE_METADATA)
     params = execution.params(params)
     cargs = v__radial_correlate_cargs(params, execution)
     ret = v__radial_correlate_outputs(params, execution)
@@ -340,6 +335,8 @@ def v__radial_correlate(
     runner: Runner | None = None,
 ) -> VRadialCorrelateOutputs:
     """
+    @radial_correlate
+    
     Check datasets for correlation artifacts.
     
     Author: AFNI Developers
@@ -371,8 +368,6 @@ def v__radial_correlate(
     Returns:
         NamedTuple of outputs (described in `VRadialCorrelateOutputs`).
     """
-    runner = runner or get_global_runner()
-    execution = runner.start_execution(V__RADIAL_CORRELATE_METADATA)
     params = v__radial_correlate_params(
         input_files=input_files,
         results_dir=results_dir,
@@ -395,13 +390,13 @@ def v__radial_correlate(
         polort=polort,
         merge_frad=merge_frad,
     )
-    return v__radial_correlate_execute(params, execution)
+    return v__radial_correlate_execute(params, runner)
 
 
 __all__ = [
     "VRadialCorrelateOutputs",
-    "VRadialCorrelateParameters",
     "V__RADIAL_CORRELATE_METADATA",
     "v__radial_correlate",
+    "v__radial_correlate_execute",
     "v__radial_correlate_params",
 ]