Release 0.3.0 · malabz/Cax

[0.3.0] - 2025-11-25

Rebuilt the alignment browser as an ASCII phylogenetic canvas with proportional branch spacing, inline RaMAx/cactus colouring, and in-place repainting without the old Textual tree widget.
Added scope switching between subtree and single-node toggles (key b), plus bulk-revert safeguards with modal hints so mixed cactus/RaMAx edits stay consistent.
Added search (/, n / Shift+N), dotted branch-length annotations, ASCII glyph fallback, and a detail buffer/info modal so large trees stay navigable and summaries remain visible even on narrow terminals.
Introduced a bottom Dashboard HUD that mirrors the current node, subtree/total RaMAx coverage, and live CPU/GPU/memory/disk metrics; keeps summaries readable on narrow terminals.
Display a short welcome/quick-start overlay after mount to highlight navigation, toggles, and run flow for new users.

Skip RaMAx rounds whose ancestors already run with RaMAx, while still honoring cactus overrides inside those subtrees so users can mix modes intentionally.
Suppress halAppendSubtree merges when the parent round output was produced by RaMAx, preventing redundant HAL writes.

Alignment nodes now retain branch lengths, support values, and parent links, enabling proportional layouts and state colouring while tolerating unlabeled or missing edges.
Newick parsing accepts numeric internal labels as support scores and ignores malformed branch lengths instead of failing the entire parse.

Moved the plan overview/environment rendering helpers into cax.ui (retiring cax.render) and pointed CLI previews at the shared UI renderer for consistent output and script exports.

Added coverage for RaMAx ancestor/descendant overrides in the planner and for bulk RaMAx subtree reversion when toggling individual nodes in the UI.