v0.9.11

- Fix: file enumeration no longer silently drops a directory subtree. `detect()`'s `os.walk` had no `onerror` handler, so an `os.scandir` failure (a permission error, or a directory created/deleted mid-walk by concurrent writes) was swallowed and that whole subtree vanished from the scan with no log, yielding a silently partial `graph.json`. The walk now records every skipped directory (surfaced in the result's `walk_errors`) and warns to stderr, while still enumerating the rest. Relatedly, `to_json`'s anti-shrink guard (#479) now fails safe: a non-empty but unreadable existing `graph.json` refuses the overwrite (pass `force=True` to override) instead of silently clobbering a good graph; an empty file still proceeds.
- Fix: Pascal/Delphi extractors no longer emit duplicate `method`/`contains`/`inherits` edges. A class method declared in the interface section and defined in the implementation section each emitted an edge to the same node, so ~half of a Pascal graph's method edges were doubled (skewing degree/centrality and tripping the new cross-file resolver's god-node guard). Both extractors now dedup edges on (source, target, relation), mirroring the existing node dedup.
- Fix: Pascal/Delphi call resolution is scoped to the caller's class + inherits chain, and calls to methods inherited across file boundaries now resolve (#1739, thanks @richtext). Both extractors previously resolved every call via a single file-wide `{name: node_id}` dict, so two unrelated classes with a same-named method (property accessors, generated COM/TLB wrappers) collapsed onto whichever was inserted last, producing wrong cross-class `calls` edges. Resolution now walks own-class then ancestor chain then file-level free functions, emitting no edge when ambiguous (same god-node guard as the Ruby resolver). A new corpus-wide resolver (`graphify/pascal_resolution.py`) resolves calls from a descendant to a base-class method declared in a different file (the common generated-base/manual-descendant split). Also stops emitting a duplicate cross-file base-class stub carrying the wrong `source_file`.
- Fix: query ranking no longer lets a lone generic term that exact-matches a short leaf label hijack seed selection in multi-term queries (#1602/#1724, thanks @fkhawajagh). `_score_nodes` scales the per-term exact/prefix tiers by squared term coverage; single-term and full-coverage queries are unchanged.
- Fix: Kotlin enum entries are extracted as nodes with `case_of` edges to their enum (#1700, thanks @ivanzhilovich). Closes the Kotlin half of #1700 (the Java half shipped in 0.9.10 via #1719); `enum class ChatType { NORMAL, GROUP, SYSTEM }` now yields NORMAL/GROUP/SYSTEM nodes and "where is ChatType.X used" works for Kotlin.
- Fix: SKILL.md's POSIX interpreter probe no longer silently falls back to a graphify-less system python (#1735, thanks @mohammedMsgm). Step 1 ran `uv tool run graphifyy python -c ...`, but the `graphifyy` package's executable is `graphify`, so uv treated `python` as a missing `graphifyy` command; `2>/dev/null` hid uv's own `--from` hint, leaving `PYTHON` on an interpreter without graphify. The probe now runs `uv tool run --from graphifyy python -c ...`. The PowerShell path was already correct.

- Refactor: decomposed the two largest modules into focused, single-responsibility modules — verbatim moves only, every original import path preserved via re-exports, no behavior change (#1737, thanks @TPAteeq). `extract.py` 17,054 → 4,740 LOC (the tree-sitter engine, cross-file resolution, shared models, and 23 language extractors moved under `graphify/extractors/`), `__main__.py` 5,368 → 673 (install/uninstall + CLI dispatch split into `graphify/install.py` and `graphify/cli.py`), `export.py` 1,671 → 962 (HTML + graph-DB exporters under `graphify/exporters/`). Full suite unchanged.
- Fix: `merge-graphs` gives each input a distinct repo tag so same-stem nodes from different source graphs don't collapse (#1729). Two graphs under a same-named repo dir (`src/graphify-out` and `frontend/src/graphify-out`, both → `src`) shared the `src::` prefix, so a backend `src/app.js` and a frontend `App.jsx` (both bare `app`) merged into one node with edges from both — false cross-runtime `path` results. Colliding tags are now widened (`frontend_src`) with an index-suffix backstop, and the command prints a note when it disambiguates.
- Fix: `uninstall` removes the graphify hook/section from Claude's local-only files too (#1731, thanks @TPAteeq). It now cleans `.claude/settings.local.json` and both `CLAUDE.local.md` locations in addition to the standard files, via both `graphify uninstall` and `graphify claude uninstall`.
- Feat: `graphify extract --code-only` indexes code (local AST, no API key) and skips the doc/paper/image semantic pass, so a mixed repo no longer hard-fails when no LLM backend is configured (#1734). Reports what it skipped; the no-key error now points users at the flag.