Release 0.9.8

Fixes: Windows PreToolUse/BeforeTool hooks for Claude Code, Codebuddy and
Gemini CLI (#522); CLAUDE.md/AGENTS.md section-write data loss (#1688);
tiktoken special-token crash (#1685); Ollama hang retry-multiplication (#1686);
truncated community-label reply salvage (#1690); cluster-only labeling token/cost
accounting (#1694); discovery-layer file drops from snapshots/ and name-keyword
filters (#1666); deepseek thinking default + GRAPHIFY_DISABLE_THINKING opt-in (#1621).

Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

Author: safishamsi

CHANGELOG.md

@@ -2,7 +2,7 @@
 
 Full release notes with details on each version: [GitHub Releases](https://github.com/safishamsi/graphify/releases)
 
-## Unreleased
+## 0.9.8 (2026-07-06)
 
 - Fix: the Claude Code / Codebuddy `PreToolUse` and Gemini CLI `BeforeTool` graph-nudge hooks now work on Windows (#522). The hooks were inline POSIX bash (`case/esac`, `[ -f ]`, single-quoted `echo`), which Windows cmd.exe/PowerShell cannot parse — so on Windows the hook failed silently, no "run `graphify query` before grepping/reading raw files" context was injected, and users had to invoke `/graphify` by hand. The detection logic (grep-command match, source-file extension match, skip-if-under-output-dir, graph-exists check) moved into a shell-agnostic `graphify hook-guard <search|read>` subcommand invoked via the absolute exe path (the same pattern the codex hook already uses), so the hook parses and runs identically on Windows, macOS, and Linux. Behavior on macOS/Linux is unchanged (byte-identical nudge payload); the graph path now also honors `GRAPHIFY_OUT`. The Gemini `BeforeTool` hook got the same treatment (`graphify hook-guard gemini`), which also removes its dependency on a bare `python` being on PATH. Codex stays a no-op there because Codex Desktop rejects `additionalContext`.
 - Fix: `--update`-style section writes to `CLAUDE.md`/`AGENTS.md` no longer corrupt or drop content (#1688, thanks @bdfinst). `_replace_or_append_section` located its managed block by substring (`marker in content`) and `next(... if marker in line)`, so a heading that appeared as a substring of another line (or duplicate headings) matched the wrong offset and the rewrite could truncate the file. It now matches the section heading exactly (`line.strip() == marker`), appends when absent, and prefers the last exact match when several exist, so unrelated content is preserved.

pyproject.toml

@@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"
 
 [project]
 name = "graphifyy"
-version = "0.9.7"
+version = "0.9.8"
 description = "AI coding assistant skill (Claude Code, CodeBuddy, Codex, OpenCode, Kilo Code, Cursor, Gemini CLI, Aider, OpenClaw, Factory Droid, Trae, Hermes, Kiro, Pi, Devin CLI, Google Antigravity) - turn any folder of code, docs, papers, images, or videos into a queryable knowledge graph"
 readme = "README.md"
 license = { file = "LICENSE" }