[3D Visualizer] Searchable label picker + subcortical field PLY export#132
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idossha wants to merge 3 commits into
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[3D Visualizer] Searchable label picker + subcortical field PLY export#132idossha wants to merge 3 commits into
idossha wants to merge 3 commits into
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- Subcortical label lookup now opens AtlasRegionFinderDialog (the shared
searchable/multi-select widget used by flex and analyzer); selected label
ids merge into the 'Labels to extract' field.
- nifti_to_mesh: add mask_to_surface(), sample_field_at_points(), and
nifti_to_field_ply() to color a subcortical surface by a sampled field
volume (per-vertex colors via tit.blender.io helpers).
- Subcortical export now also writes subcortical_{suffix}.ply when a
simulation field volume is found, mirroring the cortical STL+PLY export.
…omponent path The <=1 component branch returned a bare ndarray while both callers unpack two values, raising on clean_components=True for a single-component mask.
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Summary
Two improvements to the 3D Visual Exporter GUI extension (
tit/gui/extensions/visual_exporter.py) and mesh tooling (tit/tools/nifti_to_mesh.py):1. Reuse the shared searchable label picker
The subcortical "Show Label Lookup Table" button (a static, read-only table) is replaced with "Search & Select Labels...", which opens
AtlasRegionFinderDialog— the same searchable, multi-select widget the flex optimizer and analyzer already use.merge_into_lineedit._parse_lut_entries()parseslabeling_LUT.txtinto(id, name, rgb)tuples.2. Subcortical PLY with local field
Subcortical structures come from a label segmentation volume with no field, so previously only STL/MSH geometry was exported. Now, mirroring the cortical STL+PLY export, a field-colored PLY is written by sampling the simulation's field volume at each surface vertex.
tit/tools/nifti_to_mesh.py: extractedmask_to_surface(), addedsample_field_at_points()(trilinear sampling) andnifti_to_field_ply()(per-vertex colors via sharedtit/blender/io.pyhelpers).TI_max) +_find_field_nifti()locate the subject-space*_subject_{field}.nii.gzvolume for the selected simulation.subcortical_{suffix}.plyis written alongside STL/MSH; otherwise geometry-only export is unchanged (logs a note).Testing
Notes
The
AtlasRegionFinderDialogandmerge_into_lineeditimports are intentionally local to_show_lut_table—main.py's extension-class discovery scans the module namespace and would otherwise mistake the importedQDialogfor the extension widget.