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Merge branch 'main' of https://github.com/childmindresearch/niwrap
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@nx10
nx10 committed Feb 12, 2025
2 parents d0e3486 + 08a4c5c commit 7f88de1
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Showing 1,914 changed files with 1 addition and 3,193 deletions.
2 changes: 1 addition & 1 deletion descriptors/fastsurfer/run_fastsurfer.sh.json
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@@ -1,5 +1,5 @@
{
"name": "run_fastsurfer.sh",
"name": "/fastsurfer/run_fastsurfer.sh",
"tool-version": "2.3.3+bd65b36",
"description": "run_fastsurfer.sh takes a T1 full head image and creates segmentation using FastSurferVINN and surfaces using recon-surf",
"command-line": "run_fastsurfer.sh [SID] [SUBJECTS_DIR] [T1_INPUT] [FS_LICENSE] [ASEGDKT_SEGFILE] [VOX_SIZE] [SEG_ONLY] [SEG_LOG] [CONFORMED_NAME] [NORM_NAME] [T2_INPUT] [REG_MODE] [THREADS] [DEVICE] [VIEWAGG_DEVICE] [BATCH_SIZE] [PYTHON_CMD] [SURF_ONLY] [NO_BIASFIELD] [TAL_REG] [NO_ASEGDKT] [NO_CEREB] [CEREB_SEGFILE] [NO_HYPOTHAL] [QC_SNAP] [THREE_T] [PARALLEL] [IGNORE_FS_VERSION] [FSTESS] [FSQSPHERE] [FSAPARC] [NO_FS_T1] [NO_SURFREG] [ALLOW_ROOT] [VERSION]",
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2 changes: 0 additions & 2 deletions python/src/niwrap/afni/abids_json_info_py.py
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Expand Up @@ -52,7 +52,6 @@ def dyn_outputs(
Build outputs function.
"""
return {
"abids_json_info.py": abids_json_info_py_outputs,
}.get(t)


Expand Down Expand Up @@ -180,7 +179,6 @@ def abids_json_info_py_execute(
Returns:
NamedTuple of outputs (described in `AbidsJsonInfoPyOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = abids_json_info_py_cargs(params, execution)
ret = abids_json_info_py_outputs(params, execution)
execution.run(cargs)
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2 changes: 0 additions & 2 deletions python/src/niwrap/afni/abids_json_tool_py.py
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Expand Up @@ -48,7 +48,6 @@ def dyn_outputs(
Build outputs function.
"""
return {
"abids_json_tool.py": abids_json_tool_py_outputs,
}.get(t)


Expand Down Expand Up @@ -159,7 +158,6 @@ def abids_json_tool_py_execute(
Returns:
NamedTuple of outputs (described in `AbidsJsonToolPyOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = abids_json_tool_py_cargs(params, execution)
ret = abids_json_tool_py_outputs(params, execution)
execution.run(cargs)
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2 changes: 0 additions & 2 deletions python/src/niwrap/afni/abids_tool.py
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Expand Up @@ -46,7 +46,6 @@ def dyn_outputs(
Build outputs function.
"""
return {
"abids_tool": abids_tool_outputs,
}.get(t)


Expand Down Expand Up @@ -143,7 +142,6 @@ def abids_tool_execute(
Returns:
NamedTuple of outputs (described in `AbidsToolOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = abids_tool_cargs(params, execution)
ret = abids_tool_outputs(params, execution)
execution.run(cargs)
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2 changes: 0 additions & 2 deletions python/src/niwrap/afni/adjunct_apqc_tsnr_general.py
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Expand Up @@ -67,7 +67,6 @@ def dyn_outputs(
Build outputs function.
"""
return {
"adjunct_apqc_tsnr_general": adjunct_apqc_tsnr_general_outputs,
}.get(t)


Expand Down Expand Up @@ -339,7 +338,6 @@ def adjunct_apqc_tsnr_general_execute(
Returns:
NamedTuple of outputs (described in `AdjunctApqcTsnrGeneralOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = adjunct_apqc_tsnr_general_cargs(params, execution)
ret = adjunct_apqc_tsnr_general_outputs(params, execution)
execution.run(cargs)
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1 change: 0 additions & 1 deletion python/src/niwrap/afni/adjunct_aw_tableize_roi_info_py.py
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Expand Up @@ -162,7 +162,6 @@ def adjunct_aw_tableize_roi_info_py_execute(
Returns:
NamedTuple of outputs (described in `AdjunctAwTableizeRoiInfoPyOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = adjunct_aw_tableize_roi_info_py_cargs(params, execution)
ret = adjunct_aw_tableize_roi_info_py_outputs(params, execution)
execution.run(cargs)
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2 changes: 0 additions & 2 deletions python/src/niwrap/afni/adjunct_calc_mont_dims_py.py
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Expand Up @@ -45,7 +45,6 @@ def dyn_outputs(
Build outputs function.
"""
return {
"adjunct_calc_mont_dims.py": adjunct_calc_mont_dims_py_outputs,
}.get(t)


Expand Down Expand Up @@ -131,7 +130,6 @@ def adjunct_calc_mont_dims_py_execute(
Returns:
NamedTuple of outputs (described in `AdjunctCalcMontDimsPyOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = adjunct_calc_mont_dims_py_cargs(params, execution)
ret = adjunct_calc_mont_dims_py_outputs(params, execution)
execution.run(cargs)
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1 change: 0 additions & 1 deletion python/src/niwrap/afni/adjunct_combine_str_py.py
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Expand Up @@ -146,7 +146,6 @@ def adjunct_combine_str_py_execute(
Returns:
NamedTuple of outputs (described in `AdjunctCombineStrPyOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = adjunct_combine_str_py_cargs(params, execution)
ret = adjunct_combine_str_py_outputs(params, execution)
execution.run(cargs)
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2 changes: 0 additions & 2 deletions python/src/niwrap/afni/adjunct_is_label_py.py
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Expand Up @@ -46,7 +46,6 @@ def dyn_outputs(
Build outputs function.
"""
return {
"adjunct_is_label.py": adjunct_is_label_py_outputs,
}.get(t)


Expand Down Expand Up @@ -135,7 +134,6 @@ def adjunct_is_label_py_execute(
Returns:
NamedTuple of outputs (described in `AdjunctIsLabelPyOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = adjunct_is_label_py_cargs(params, execution)
ret = adjunct_is_label_py_outputs(params, execution)
execution.run(cargs)
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1 change: 0 additions & 1 deletion python/src/niwrap/afni/adjunct_make_script_and_rst_py.py
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Expand Up @@ -177,7 +177,6 @@ def adjunct_make_script_and_rst_py_execute(
Returns:
NamedTuple of outputs (described in `AdjunctMakeScriptAndRstPyOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = adjunct_make_script_and_rst_py_cargs(params, execution)
ret = adjunct_make_script_and_rst_py_outputs(params, execution)
execution.run(cargs)
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2 changes: 0 additions & 2 deletions python/src/niwrap/afni/adjunct_select_str_py.py
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Expand Up @@ -47,7 +47,6 @@ def dyn_outputs(
Build outputs function.
"""
return {
"adjunct_select_str.py": adjunct_select_str_py_outputs,
}.get(t)


Expand Down Expand Up @@ -140,7 +139,6 @@ def adjunct_select_str_py_execute(
Returns:
NamedTuple of outputs (described in `AdjunctSelectStrPyOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = adjunct_select_str_py_cargs(params, execution)
ret = adjunct_select_str_py_outputs(params, execution)
execution.run(cargs)
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2 changes: 0 additions & 2 deletions python/src/niwrap/afni/adjunct_simplify_cost.py
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Expand Up @@ -45,7 +45,6 @@ def dyn_outputs(
Build outputs function.
"""
return {
"adjunct_simplify_cost": adjunct_simplify_cost_outputs,
}.get(t)


Expand Down Expand Up @@ -130,7 +129,6 @@ def adjunct_simplify_cost_execute(
Returns:
NamedTuple of outputs (described in `AdjunctSimplifyCostOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = adjunct_simplify_cost_cargs(params, execution)
ret = adjunct_simplify_cost_outputs(params, execution)
execution.run(cargs)
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1 change: 0 additions & 1 deletion python/src/niwrap/afni/adjunct_suma_fs_mask_and_qc.py
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Expand Up @@ -189,7 +189,6 @@ def adjunct_suma_fs_mask_and_qc_execute(
Returns:
NamedTuple of outputs (described in `AdjunctSumaFsMaskAndQcOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = adjunct_suma_fs_mask_and_qc_cargs(params, execution)
ret = adjunct_suma_fs_mask_and_qc_outputs(params, execution)
execution.run(cargs)
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1 change: 0 additions & 1 deletion python/src/niwrap/afni/adjunct_suma_fs_roi_info.py
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Expand Up @@ -172,7 +172,6 @@ def adjunct_suma_fs_roi_info_execute(
Returns:
NamedTuple of outputs (described in `AdjunctSumaFsRoiInfoOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = adjunct_suma_fs_roi_info_cargs(params, execution)
ret = adjunct_suma_fs_roi_info_outputs(params, execution)
execution.run(cargs)
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1 change: 0 additions & 1 deletion python/src/niwrap/afni/adjunct_tort_plot_dp_align.py
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Expand Up @@ -187,7 +187,6 @@ def adjunct_tort_plot_dp_align_execute(
Returns:
NamedTuple of outputs (described in `AdjunctTortPlotDpAlignOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = adjunct_tort_plot_dp_align_cargs(params, execution)
ret = adjunct_tort_plot_dp_align_outputs(params, execution)
execution.run(cargs)
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1 change: 0 additions & 1 deletion python/src/niwrap/afni/adwarp.py
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Expand Up @@ -219,7 +219,6 @@ def adwarp_execute(
Returns:
NamedTuple of outputs (described in `AdwarpOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = adwarp_cargs(params, execution)
ret = adwarp_outputs(params, execution)
execution.run(cargs)
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1 change: 0 additions & 1 deletion python/src/niwrap/afni/afni.py
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Expand Up @@ -312,7 +312,6 @@ def afni_execute(
Returns:
NamedTuple of outputs (described in `AfniOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = afni_cargs(params, execution)
ret = afni_outputs(params, execution)
execution.run(cargs)
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2 changes: 0 additions & 2 deletions python/src/niwrap/afni/afni_batch_r.py
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Expand Up @@ -49,7 +49,6 @@ def dyn_outputs(
Build outputs function.
"""
return {
"AFNI_Batch_R": afni_batch_r_outputs,
}.get(t)


Expand Down Expand Up @@ -160,7 +159,6 @@ def afni_batch_r_execute(
Returns:
NamedTuple of outputs (described in `AfniBatchROutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = afni_batch_r_cargs(params, execution)
ret = afni_batch_r_outputs(params, execution)
execution.run(cargs)
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2 changes: 0 additions & 2 deletions python/src/niwrap/afni/afni_check_omp.py
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Expand Up @@ -45,7 +45,6 @@ def dyn_outputs(
Build outputs function.
"""
return {
"afni_check_omp": afni_check_omp_outputs,
}.get(t)


Expand Down Expand Up @@ -132,7 +131,6 @@ def afni_check_omp_execute(
Returns:
NamedTuple of outputs (described in `AfniCheckOmpOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = afni_check_omp_cargs(params, execution)
ret = afni_check_omp_outputs(params, execution)
execution.run(cargs)
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2 changes: 0 additions & 2 deletions python/src/niwrap/afni/afni_history.py
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Expand Up @@ -65,7 +65,6 @@ def dyn_outputs(
Build outputs function.
"""
return {
"afni_history": afni_history_outputs,
}.get(t)


Expand Down Expand Up @@ -305,7 +304,6 @@ def afni_history_execute(
Returns:
NamedTuple of outputs (described in `AfniHistoryOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = afni_history_cargs(params, execution)
ret = afni_history_outputs(params, execution)
execution.run(cargs)
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2 changes: 0 additions & 2 deletions python/src/niwrap/afni/afni_open.py
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Expand Up @@ -59,7 +59,6 @@ def dyn_outputs(
Build outputs function.
"""
return {
"afni_open": afni_open_outputs,
}.get(t)


Expand Down Expand Up @@ -219,7 +218,6 @@ def afni_open_execute(
Returns:
NamedTuple of outputs (described in `AfniOpenOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = afni_open_cargs(params, execution)
ret = afni_open_outputs(params, execution)
execution.run(cargs)
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1 change: 0 additions & 1 deletion python/src/niwrap/afni/afni_proc_py.py
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Expand Up @@ -206,7 +206,6 @@ def afni_proc_py_execute(
Returns:
NamedTuple of outputs (described in `AfniProcPyOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = afni_proc_py_cargs(params, execution)
ret = afni_proc_py_outputs(params, execution)
execution.run(cargs)
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2 changes: 0 additions & 2 deletions python/src/niwrap/afni/afni_run_r.py
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Expand Up @@ -46,7 +46,6 @@ def dyn_outputs(
Build outputs function.
"""
return {
"afni_run_R": afni_run_r_outputs,
}.get(t)


Expand Down Expand Up @@ -135,7 +134,6 @@ def afni_run_r_execute(
Returns:
NamedTuple of outputs (described in `AfniRunROutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = afni_run_r_cargs(params, execution)
ret = afni_run_r_outputs(params, execution)
execution.run(cargs)
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2 changes: 0 additions & 2 deletions python/src/niwrap/afni/afni_system_check_py.py
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Expand Up @@ -54,7 +54,6 @@ def dyn_outputs(
Build outputs function.
"""
return {
"afni_system_check.py": afni_system_check_py_outputs,
}.get(t)


Expand Down Expand Up @@ -205,7 +204,6 @@ def afni_system_check_py_execute(
Returns:
NamedTuple of outputs (described in `AfniSystemCheckPyOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = afni_system_check_py_cargs(params, execution)
ret = afni_system_check_py_outputs(params, execution)
execution.run(cargs)
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2 changes: 0 additions & 2 deletions python/src/niwrap/afni/aiv.py
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Expand Up @@ -50,7 +50,6 @@ def dyn_outputs(
Build outputs function.
"""
return {
"aiv": aiv_outputs,
}.get(t)


Expand Down Expand Up @@ -173,7 +172,6 @@ def aiv_execute(
Returns:
NamedTuple of outputs (described in `AivOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = aiv_cargs(params, execution)
ret = aiv_outputs(params, execution)
execution.run(cargs)
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1 change: 0 additions & 1 deletion python/src/niwrap/afni/align_epi_anat.py
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Expand Up @@ -262,7 +262,6 @@ def align_epi_anat_execute(
Returns:
NamedTuple of outputs (described in `AlignEpiAnatOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = align_epi_anat_cargs(params, execution)
ret = align_epi_anat_outputs(params, execution)
execution.run(cargs)
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2 changes: 0 additions & 2 deletions python/src/niwrap/afni/analyze_trace.py
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Expand Up @@ -55,7 +55,6 @@ def dyn_outputs(
Build outputs function.
"""
return {
"AnalyzeTrace": analyze_trace_outputs,
}.get(t)


Expand Down Expand Up @@ -213,7 +212,6 @@ def analyze_trace_execute(
Returns:
NamedTuple of outputs (described in `AnalyzeTraceOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = analyze_trace_cargs(params, execution)
ret = analyze_trace_outputs(params, execution)
execution.run(cargs)
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1 change: 0 additions & 1 deletion python/src/niwrap/afni/ap_run_simple_rest.py
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Expand Up @@ -223,7 +223,6 @@ def ap_run_simple_rest_execute(
Returns:
NamedTuple of outputs (described in `ApRunSimpleRestOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = ap_run_simple_rest_cargs(params, execution)
ret = ap_run_simple_rest_outputs(params, execution)
execution.run(cargs)
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2 changes: 0 additions & 2 deletions python/src/niwrap/afni/apqc_make_html.py
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Expand Up @@ -45,7 +45,6 @@ def dyn_outputs(
Build outputs function.
"""
return {
"apqc_make_html": apqc_make_html_outputs,
}.get(t)


Expand Down Expand Up @@ -133,7 +132,6 @@ def apqc_make_html_execute(
Returns:
NamedTuple of outputs (described in `ApqcMakeHtmlOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = apqc_make_html_cargs(params, execution)
ret = apqc_make_html_outputs(params, execution)
execution.run(cargs)
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1 change: 0 additions & 1 deletion python/src/niwrap/afni/apqc_make_tcsh_py.py
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Expand Up @@ -180,7 +180,6 @@ def apqc_make_tcsh_py_execute(
Returns:
NamedTuple of outputs (described in `ApqcMakeTcshPyOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = apqc_make_tcsh_py_cargs(params, execution)
ret = apqc_make_tcsh_py_outputs(params, execution)
execution.run(cargs)
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1 change: 0 additions & 1 deletion python/src/niwrap/afni/apsearch.py
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Expand Up @@ -146,7 +146,6 @@ def apsearch_execute(
Returns:
NamedTuple of outputs (described in `ApsearchOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = apsearch_cargs(params, execution)
ret = apsearch_outputs(params, execution)
execution.run(cargs)
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2 changes: 0 additions & 2 deletions python/src/niwrap/afni/auto_warp_py.py
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Expand Up @@ -77,7 +77,6 @@ def dyn_outputs(
Build outputs function.
"""
return {
"auto_warp.py": auto_warp_py_outputs,
}.get(t)


Expand Down Expand Up @@ -386,7 +385,6 @@ def auto_warp_py_execute(
Returns:
NamedTuple of outputs (described in `AutoWarpPyOutputs`).
"""
# validate constraint checks (or after middlewares?)
cargs = auto_warp_py_cargs(params, execution)
ret = auto_warp_py_outputs(params, execution)
execution.run(cargs)
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