Tract viewer Methods Ideas

Mesh modeling

Thalamus and nucleus accumbens only. No cortex, no tracts, no other nuclei. Switch proposals to compare. The live tract viewer stays the unfilled atlas meshes until you accept one.

Loading meshes…

Drag to orbit. Scroll to zoom. Views match the tract viewer (z is up). FrontSide ghost shading is the default so a cave looks like a cave.

Show

Mesh proposal (both structures). Live tract viewer stays original.

Cap lid is a thin wall at x = 0 covering the whole inner circle in this left-style view. It does not fill the bowl in x. Thin bridge is closest-contact only (this made the ring larger). Fill cave is a 3-D convex hull. Shrink dent is a small morphological close.

Which opening (thalamus)

Pick every opening you mean. “The hole” is not enough — these look different from different views.

Dent between the two hills, front view, superior midline.
Gap between the pulvinars from above. Open toward the back.
Circular inner walls. You look into the third ventricle.
Where left and right already touch, near x = 0.
Which opening (accumbens)
The arch from the front. Empty space below the waist.
Narrow waist from above.
The 4–8 mm midline gap at nearest approach.
What “close” should do
How much, and what must not happen
Views that decide success

Name the views that must look closed, and the views that must not get worse.

Must not get worse in:

Free notes
Spec to paste
JSON

How to describe the change

Name the view first
Front, top, left, or oblique. The same mesh shows a V, a U, or a cave depending on the camera.
Say look-into versus look-through versus dent
A dent is a notch in the outline. A cave is inner walls you look into. A tunnel would go through; these meshes are not tunnels (they are genus 0).
Say whether two lobes should remain
A thin bridge keeps left and right readable. Filling the cave makes one blob.
Say what must not happen
The failed edit roofed the third ventricle and opened larger inferior windows. Tick “no new windows” if that is still forbidden.
Paste the spec
Copy the spec box into chat. That is enough to start the next edit. Do not only write “close the hole”.