skills/graphify-labs__graphify
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109 Commits

Author SHA1 Message Date
Safi 64f38acf3e implement #488 #482 #472 #490: legacy schema canonicalization, Java inheritance, aggregated HTML viz, check-update subcommand 2026-04-22 23:28:09 +01:00
Safi 4bc20527c3 fix #513 #514: skip head -1 on .exe hook binary, fix to_canvas() hardcoded obsidian path 2026-04-22 23:01:53 +01:00
Safi 52ad45bd27 fix #504: export PYTHONUTF8=1 in Step 1 to prevent garbled CJK output on Windows 2026-04-22 09:28:26 +01:00
Safi 86d6d9317f fix #498: opencode config to .opencode/opencode.json, fix skill temp file paths, add --wiki step 2026-04-22 09:19:53 +01:00
Safi d9b2928da1 fix: deterministic GRAPH_REPORT on large graphs, stable edge node IDs, correct common-root inference 
- analyze.py: add seed=42 to betweenness_centrality() — eliminates non-deterministic GRAPH_REPORT.md diffs on graphs >1000 nodes (#499)
- extract.py: fix common-root inference to stop at first diverging segment not sum of all matches (#502)
- extract.py: resolve root to absolute path; post-process file node IDs to project-relative after extraction so graph.json edge endpoints are stable across machines (#502)

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-22 09:04:38 +01:00
Safi f8fd8f8479 fix: wiki encoding+collisions, hook rebase guard, detect path resolve, readme gitignore docs 
- wiki.py: add encoding="utf-8" to all write_text() calls (fixes Windows cp1252 crash #496)
- wiki.py: deduplicate filenames with _unique_slug() to prevent silent article overwrites (#497)
- hooks.py: skip post-commit/post-checkout during rebase/merge/cherry-pick (#485)
- detect.py: resolve root path at detect() entry so .graphifyignore patterns match consistently (#495)
- README.md: document manifest.json, cost.json gitignore and .graphifyignore platform file examples (#369)

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-22 06:26:15 +01:00
Safi 7cb639ae5d fix(report): complete empty-community fix — hubs, summary count, thin-community gaps; add graph-query CLI rules to install sections 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-21 22:42:53 +01:00
Safi dbde78ca03 Fix four bugs from community PRs 
- cache: skip directory source_file in save_cached to prevent IsADirectoryError (#444)
- report: skip structural-only communities with no real nodes (#443)
- hooks: allow @ in python path allowlist for Homebrew paths (#474)
- watch: keep source_file paths project-relative after rebuild (#434)

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-21 22:26:17 +01:00
Safi 9c3d0fa517 Fix chunk temp files not cleaned up after graph build 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-21 22:21:37 +01:00
Safi 4738e88aaf fix #453 antigravity install uses .agents not .agent, fix #436 _is_sensitive false positives on directory names, fix #433 update command writes absolute paths in artifacts 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-21 21:33:33 +01:00
Safi 81b6e7d7b4 fix #455 #448 IsADirectoryError in file_hash and save_semantic_cache, fix #454 sanitize_label crash on None source_file 2026-04-21 21:25:13 +01:00
Safi f0ebd07fd5 Improve packaging: uv tool install support, fix interpreter detection on Mac/Linux 2026-04-21 21:11:27 +01:00
Safi 9c2275ad82 fix #432 to_html crash on large graphs, fix #431 Go import node ID collision 2026-04-18 10:54:39 +01:00
Safi d67436c065 v0.4.23: fix #178 stale version stamp, fix #260 add .html to DOC_EXTENSIONS 2026-04-18 10:47:37 +01:00
Safi c24cde9d9e v0.4.22: fix #429 AST cache root, fix #428 add .mdx to DOC_EXTENSIONS 2026-04-18 09:47:06 +01:00
Safi 8666c6994c v0.4.21: fix #422 cluster-only KeyError total_files, fix #423 --update drops existing nodes 2026-04-17 20:33:06 +01:00
Safi a507c97822 v0.4.20: fix #414 JS imports_from path normalisation, fix #418 graph.html missing from CLI 2026-04-17 15:47:56 +01:00
Safi 8a474eb1b3 v0.4.19: fix #390 #298 #410 #401 #385, team workflow docs, Windows/pipx tips 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-17 12:46:42 +01:00
Safi b2523fcdec v0.4.16: fix watch NameError, .mjs dispatch, exclude llm.py from wheel 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-16 07:01:04 +01:00
Safi 429e46a665 v0.4.15: VS Code Copilot Chat, OpenCode/Gemini Windows fixes, .mjs/.ejs, macOS watch, god_nodes degree rename 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-15 23:08:43 +01:00
Safi 01fb51ba78 Fix 9 issues: kiro package data, betweenness perf, wiki step, opencode plugin, cache root, PHP missing edges, Windows stability, cross-file calls 
- #352: add skill-kiro.md to pyproject.toml package-data
- #341: guard edge_betweenness at >5000 nodes; use approximate k=100 for suggest_questions on large graphs
- #354/#229: add Step 6b in skill.md to call to_wiki() when --wiki given (before Step 9 cleanup)
- #356: call _install_opencode_plugin() from install --platform opencode path
- #350: add cache_root param to extract() so subdirectory runs keep cache at ./graphify-out/cache/
- #230: PHP class_constant_access_expression emits references_constant edges
- #232: PHP scoped_call_expression (static method calls) emits calls edges
- #287: os.replace fallback for Windows WinError 5; graphify update exits 1 on failure; templates use graphify update . instead of python3 -c
- #348: cross-file call resolution for all languages via raw_calls + global label map pass in extract()

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-15 00:26:11 +01:00
Safi b85184002c v0.4.13: Verilog support, HiDPI hyperedge fix, null label guards, AGENTS.md python3 fix 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-14 09:28:01 +01:00
Safi 2993cce8b2 v0.4.12: add Kiro IDE/CLI support, fix cache portability across machines 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-13 22:46:13 +01:00
Safi b00813bcb2 v0.4.11: fix query crash on MultiGraph, NoneType in serve.py, MCP CWD path bug, .graphifyignore subfolder patterns; v0.4.10: Dart, Hermes, 6 CLI commands, PHP improvements 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-13 12:48:47 +01:00
Safi 1fbcaf840f release: v0.4.9 — PHP extractor improvements, Dart, diacritics, Hermes, fixes 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-13 08:39:28 +01:00
Safi 1dd4c41413 Remove Claude-specific language from platform skill files (0.4.8) 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-12 21:18:20 +01:00
Safi 4210de270f Fix watch edge key, claw path, Blade support, WSL MCP docs (0.4.7) 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-12 20:49:24 +01:00
Safi f8c91a987f Add Google Antigravity platform support (0.4.6) 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-12 19:16:49 +01:00
Safi 6724350665 fix MCP ValidationError on blank stdin lines and bump to 0.4.5 
Some MCP clients send blank lines between JSON messages. The stdio
transport tried to parse every line as JSONRPCMessage, crashing with
a Pydantic ValidationError. _filter_blank_stdin() installs an OS-level
pipe that relays stdin while silently dropping blank-only lines.

Closes #201

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-12 18:48:29 +01:00
Safi 5ab8eb34c5 fix #261, #249, #266 and bump to 0.4.4 
- watch.py: preserve INFERRED/AMBIGUOUS edges (code<->doc) across rebuilds (#261)
- __main__.py: fix Codex hook - use additionalContext instead of permissionDecision:allow (#249)
- detect.py: skip common lockfiles (package-lock.json, yarn.lock, Cargo.lock etc.) (#266)

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-12 18:37:54 +01:00
Safi d1808bab8c fix bugs #256, #253, #244, #226, #254 and bump to 0.4.3 
- extract.py: resolve relative JS/TS imports to full-path IDs (fixes 0 import edges on TS codebases) (#256)
- extract.py: resolve relative Python imports to full-path IDs (#256)
- watch.py: merge fresh AST with existing semantic nodes instead of overwriting (#253)
- hooks.py: add python fallback after python3 for Windows; exit 0 if neither found (#244)
- analyze.py: guard stale _src/_tgt hints with node membership check (#226)
- detect.py + extract.py: add .vue and .svelte to CODE_EXTENSIONS and _DISPATCH (#254)

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-12 12:59:15 +01:00
Safi 8c17230586 cherry-pick PRs #212, #220, #204, #221 into 0.4.2 
- build/validate: accept NetworkX <=3.1 "links" key alongside "edges" (#212)
- __main__: skip version check during install/uninstall, deduplicate paths (#220)
- all file IO: explicit encoding="utf-8" to prevent crashes on Windows CJK locales (#204)
- hooks: add newline="\n" on write to prevent CRLF shebang breakage on Windows (#204)
- export: strip trailing .md from safe_name so "CLAUDE.md" doesn't become "CLAUDE.md.md" (#221)
- report: add Community Hubs navigation block so Obsidian vault stays connected (#221)

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-11 21:07:39 +01:00
Safi 1cb882a156 fix bugs #211, #216, #217, #222 and bump to 0.4.2 
- extract.py: use str(path) for node IDs to prevent same-basename collision (#211)
- build.py: normalize from/to edge keys before KeyError (#216)
- export.py: guard ZeroDivisionError when graph has no edges (#217)
- hooks.py: remove stale CODE_EXTS filter, rebuild on any changed file (#222)

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-11 20:53:08 +01:00
Safi cede5b6ca6 Fix #188: collect_files() now respects .graphifyignore; fix #195: skill.md requires general-purpose subagent type for extraction dispatch 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-10 18:41:48 +01:00
Safi 74cb9ce197 Security: fix YAML injection in ingest.py, </script> injection in export.py, bound collision loop 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-10 16:07:51 +01:00
Safi 2a7d2f4fdc Remove Anthropic API call from transcribe.py - agent generates Whisper prompt itself 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-10 15:55:22 +01:00
Safi cf5d721bee Add video/audio corpus support with yt-dlp download and Whisper transcription 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-10 15:40:18 +01:00
Safi e3adc0417a fix hook reinstall, CRLF labels, skill-windows missing commands (0.3.28) 2026-04-10 10:07:11 +01:00
Safi 6b6d90ac0f fix gemini install missing skill file copy (0.3.27) 2026-04-10 01:28:19 +01:00
Safi 6d39432058 fix MCP server path validation security issue (0.3.26) 2026-04-10 01:08:15 +01:00
Safi 9c829d7a2e release 0.3.25: Aider + Copilot CLI, directed graphs, frontmatter cache, graphifyignore parent discovery, MCP fixes 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-10 00:56:22 +01:00
Safi f18ea01530 Fix codex/opencode install idempotency — always run hook step (#153) 2026-04-09 17:59:16 +01:00
Safi df26f85648 Add Gemini CLI support and sponsor nudge at pipeline completion (#105) 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-09 17:40:45 +01:00
Safi df77d5f8ce Add Cursor support, fix _rebuild_code KeyError and node_link_data crash (#137, #148, #149) 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-09 17:19:40 +01:00
Safi 45e407db35 Fix Codex hook JSON schema (#138) and use #!/bin/sh for Windows git hooks (#140) 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-09 14:12:36 +01:00
Safi 95f6c104d4 Pin tree-sitter>=0.23.0, add version guard, confidence=EXTRACTED for AST calls 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-09 09:36:32 +01:00
Safi ca842472e5 Fix AST call edges confidence: INFERRED/0.8 -> EXTRACTED/1.0 (#127) 
Tree-sitter resolves call targets directly from source — marking them
INFERRED was incorrect. Cross-file class-level uses edges remain INFERRED.

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-09 09:22:12 +01:00
Safi bb2049cec1 Fix XSS in HTML viz: escape node labels, types, source files, and edge relations in innerHTML (#sec) 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-09 09:06:02 +01:00
Safi e5760e6b03 Add OpenCode tool.execute.before plugin via graphify opencode install (#71) 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-09 08:55:07 +01:00
Safi be2058d5d5 Fix install step: try plain pip before --break-system-packages (#126) 
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
 2026-04-09 08:40:17 +01:00