Safi 8e6ba9d714 Parse package manifests into canonical package nodes + depends_on edges (#1377) ...

apm.yml was a .yml document handled by the LLM, so the same package got a
different file-anchored node id from its own manifest than from each dependent's
dependency reference and split into duplicate nodes. New manifest_ingest module
parses apm.yml/pyproject.toml/go.mod/pom.xml deterministically into ONE package
node per package, keyed by name via ids.make_id, plus depends_on edges; routed
to the AST path (CODE) so the LLM never sees them. Package nodes are exempt from
the file-stem prefix remap so the canonical id is stable across manifests and
dedup collapses references to a single hub node.

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

2026-06-19 10:25:09 +01:00

..

fixtures

feat: PowerShell .psd1 manifest parsing & Import-Module / dot-source edge emission (#1331) (#1341)

2026-06-17 10:46:12 +01:00

__init__.py

…

bench_extract.py

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conftest.py

feat(multigraph): add runtime compatibility probe (#956)

2026-05-22 13:22:51 +01:00

test_affected_cli.py

fix node label lookup normalization (#1353)

2026-06-17 10:29:43 +01:00

test_analyze.py

feat: detect circular import dependencies at file level (#961)

2026-05-30 21:37:47 +01:00

test_anthropic_custom_endpoint.py

feat: custom endpoints via OPENAI_BASE_URL/OPENAI_MODEL and ANTHROPIC_BASE_URL/ANTHROPIC_MODEL (#1273)

2026-06-16 01:41:15 +01:00

test_antigravity_install.py

write antigravity rules and workflows on project-scoped install

2026-06-02 23:48:54 +01:00

test_astro_extraction.py

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test_backend_extras.py

add anthropic extra and fix backend-missing hints for uv tool installs

2026-06-03 00:08:03 +01:00

test_benchmark.py

feat(multigraph): add runtime compatibility probe (#956)

2026-05-22 13:22:51 +01:00

test_build.py

fix(skill): pin extraction source_file + root the full build, prune deleted-only

2026-06-17 16:07:14 +03:00

test_cache.py

Merge pull request #1260 from teemow/fix/frontmatter-delimiters

2026-06-11 23:22:20 +01:00

test_callflow_html.py

feat(multigraph): add runtime compatibility probe (#956)

2026-05-22 13:22:51 +01:00

test_cargo_introspect.py

feat(extract): add opt-in --cargo crate dependency extractor

2026-06-11 15:08:36 -06:00

test_charmap_encoding.py

fix(llm): force UTF-8 encoding on _call_claude_cli subprocess + loud failure on chunk errors (#906)

2026-05-17 11:32:38 +01:00

test_chunking.py

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test_claude_cli_backend.py

fix: claude-cli backend works headlessly on Windows npm installs

2026-06-11 09:58:39 -04:00

test_claude_md.py

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test_cli_export.py

feat: add FalkorDB export backend (#1175)

2026-06-07 15:03:49 +03:00

test_cluster.py

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test_codebuddy.py

feat: add CodeBuddy platform support (#1136)

2026-06-07 14:34:13 +01:00

test_confidence.py

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test_cpp_preprocess.py

harden ollama metadata egress and cpp path handling (F3, F5)

2026-06-02 22:23:15 +01:00

test_dart.py

feat(extract): SystemVerilog class-level extraction; Dart with-clause mixin fix

2026-06-11 19:52:56 +03:00

test_dedup.py

Stop fuzzy dedup over-merging numbered siblings, cross-file boilerplate, and prefix-divergent labels (#1284, #1243)

2026-06-17 14:21:19 +01:00

test_detect.py

Merge .graphifyignore with .gitignore instead of replacing it (#1363)

2026-06-18 01:15:24 +01:00

test_devin.py

feat: add Devin CLI support (graphify devin install/uninstall) (#1020)

2026-05-26 09:17:18 +01:00

test_dotnet.py

feat: add .slnx solution file support (#1189)

2026-06-08 10:35:32 +01:00

test_explain_cli.py

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test_export.py

Populate Obsidian canvas when no community data is present (#1324)

2026-06-17 13:49:31 +01:00

test_extract_cli.py

fix: anchor extraction cache at --out root so external output leaves the scanned project clean

2026-06-11 14:02:32 +08:00

test_extract.py

feat: extract JS/TS this.X=, exports.X=, prototype, class arrow fields, function expressions (#1323)

2026-06-16 02:14:31 +01:00

test_extraction_spec_ids.py

Unify node-ID normalization into a single source of truth (#1378)

2026-06-18 22:55:44 +01:00

test_falkordb_integration.py

feat: add FalkorDB export backend (#1175)

2026-06-07 15:03:49 +03:00

test_file_node_id_spec.py

relativize symbol node IDs for root-level files to match spec (fixes #1096)

2026-05-31 17:09:30 +01:00

test_file_slice.py

Slice oversized text documents so the whole file is extracted (#1369)

2026-06-18 01:55:56 +01:00

test_global_graph.py

fix(global-graph): rewire edges to deduplicated external nodes (#1250)

2026-06-11 09:36:38 +02:00

test_google_workspace.py

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test_hooks.py

Reject Windows-style git hooks paths instead of creating a junk dir (#1385)

2026-06-19 10:06:07 +01:00

test_hypergraph.py

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test_id_normalization_contract.py

Unify node-ID normalization into a single source of truth (#1378)

2026-06-18 22:55:44 +01:00

test_image_vision.py

feat/fix: land PRs #1118 #1110 #1159 #1107 #1103 (graph quality + new features)

2026-06-07 01:20:38 +01:00

test_import_extension_resolution.py

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test_incremental.py

fix incremental no-cluster graph updates (#1350)

2026-06-17 10:46:08 +01:00

test_ingest.py

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test_install_references.py

fix: four production bugs — Windows crashes, ghost-merge collision, version probe

2026-06-13 15:13:23 +01:00

test_install_roundtrip.py

feat(skills): progressive-disclosure split for all platforms (generator + drift fence) (#1121)

2026-06-02 20:48:13 +01:00

test_install_strings.py

close the Read-tool graph bypass with a Read/Glob PreToolUse hook

2026-06-03 00:00:33 +01:00

test_install_upgrade.py

fix(install): route kiro install/uninstall through shared progressive helper (#1142)

2026-06-05 22:15:09 +01:00

test_install.py

feat: add CodeBuddy platform support (#1136)

2026-06-07 14:34:13 +01:00

test_java_type_resolution.py

Model Java records as type nodes and extract constructor calls (#1373)

2026-06-18 01:18:48 +01:00

test_js_import_resolution.py

fix js workspace import resolution (#1352)

2026-06-17 10:29:47 +01:00

test_label_retry.py

Adaptive split-and-retry for community labeling on parse failure (#1280, #1278)

2026-06-18 22:50:52 +01:00

test_labeling.py

feat: add model override for community labeling

2026-06-12 17:57:19 +08:00

test_languages.py

Emit edges for markdown links so hub docs connect (#1376)

2026-06-19 10:02:27 +01:00

test_llm_backends.py

Accept str paths in the semantic extract entry points (#1386)

2026-06-19 10:01:31 +01:00

test_llm_parser.py

fix(claude-cli): eliminate hollow-response loop from system-prompt conflict

2026-05-28 17:44:35 +02:00

test_manifest_ingest.py

Parse package manifests into canonical package nodes + depends_on edges (#1377)

2026-06-19 10:25:09 +01:00

test_mcp_ingest.py

feat: MCP config extractor (.mcp.json, claude_desktop_config.json, mcp.json)

2026-05-26 20:16:41 +01:00

test_minhash.py

perf/fix: replace datasketch with pure-numpy MinHash; memoize detect ignore checks

2026-06-10 15:50:38 +01:00

test_multigraph_compat.py

feat(multigraph): add runtime compatibility probe (#956)

2026-05-22 13:22:51 +01:00

test_multigraph_diagnostics.py

feat(multigraph): add runtime compatibility probe (#956)

2026-05-22 13:22:51 +01:00

test_multilang.py

feat: semantic type-reference edges for Swift, Kotlin, PHP, Rust, and Go (#1015)

2026-05-28 14:46:03 +01:00

test_obsidian_dangling_member.py

fix: obsidian crash, NFC/NFD dedup, JSON data nodes, OpenAI temperature, JSON config detection

2026-06-10 19:31:47 +01:00

test_obsidian_filename_cap.py

cap obsidian/canvas filenames to avoid ENAMETOOLONG on long labels (fixes #1094)

2026-05-31 16:41:18 +01:00

test_office_limits.py

tighten F2 and F3 from review: bounded decompression, ollama DNS + clean error

2026-06-02 22:50:33 +01:00

test_ollama.py

tighten F2 and F3 from review: bounded decompression, ollama DNS + clean error

2026-06-02 22:50:33 +01:00

test_openai_custom_endpoint.py

feat: custom endpoints via OPENAI_BASE_URL/OPENAI_MODEL and ANTHROPIC_BASE_URL/ANTHROPIC_MODEL (#1273)

2026-06-16 01:41:15 +01:00

test_pascal.py

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test_path_cli.py

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test_pg_introspect.py

fix: security hardening, dedup correctness, and large-graph support

2026-06-10 12:45:20 +01:00

test_pipeline.py

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test_provider_registry.py

validate custom-provider base_url and gate project-local providers (F1)

2026-06-02 22:16:58 +01:00

test_prs.py

add graphify prs: graph-aware PR dashboard with triage, worktrees, conflict detection

2026-05-16 22:36:58 +01:00

test_python_import_resolution.py

feat: add cross-language semantic contexts for Python, JS/TS, C#, and Java (#996)

2026-05-24 20:38:10 +01:00

test_query_cli.py

feat(multigraph): add runtime compatibility probe (#956)

2026-05-22 13:22:51 +01:00

test_querylog.py

add query logging to ~/.cache/graphify-queries.log (#1128)

2026-06-03 21:04:01 +01:00

test_rationale.py

fix: memory-dir gitignore leak, Pass 2 dedup cross-file identical merge, decorated method node ID mismatch (#1047, #1046, #1050)

2026-05-27 22:30:08 +01:00

test_read_hook.py

close the Read-tool graph bypass with a Read/Glob PreToolUse hook

2026-06-03 00:00:33 +01:00

test_report.py

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test_scip_ingest.py

feat(multigraph): add runtime compatibility probe (#956)

2026-05-22 13:22:51 +01:00

test_security.py

feat(multigraph): add runtime compatibility probe (#956)

2026-05-22 13:22:51 +01:00

test_semantic_cleanup.py

feat(multigraph): add runtime compatibility probe (#956)

2026-05-22 13:22:51 +01:00

test_semantic_similarity.py

…

test_serve_http.py

feat(serve): add Streamable HTTP transport to MCP server (#1143)

2026-06-07 00:43:40 +01:00

test_serve.py

fix node label lookup normalization (#1353)

2026-06-17 10:29:43 +01:00

test_skillgen.py

Unify query skill: ship expansion + inline fallback to every platform

2026-06-16 03:33:23 +01:00

test_swift_cross_file_calls.py

Resolve cross-file Swift class relationships from member calls and constructors (#1356)

2026-06-17 12:08:59 +01:00

test_swift_import_resolution.py

Collapse Swift module imports to one shared node

2026-06-16 03:06:43 +01:00

test_symbol_resolution.py

feat(multigraph): add runtime compatibility probe (#956)

2026-05-22 13:22:51 +01:00

test_terraform.py

revert: remove importorskip now that uv.lock includes tree-sitter-hcl

2026-06-05 21:46:25 +01:00

test_transcribe.py

…

test_ts_inheritance.py

capture TS interface-extends and same-file class heritage (fixes #1095)

2026-05-31 16:47:52 +01:00

test_validate.py

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test_watch.py

fix incremental no-cluster graph updates (#1350)

2026-06-17 10:46:08 +01:00

test_wheel_packaging.py

harden _always_on against missing blocks and pin skillgen baselines

2026-06-02 21:08:11 +01:00

test_wiki.py

Fix wiki TypeError on null source_file and skip nested worktrees/ dirs (#1016, #1023)

2026-05-26 09:06:43 +01:00