From ce625053027180f38ba3eaa6b18c65de4261144f Mon Sep 17 00:00:00 2001 From: Andre Brait Date: Thu, 3 Sep 2026 07:01:45 +0000 Subject: [PATCH] feat(packaging): gate the leiden extra by interpreter _partition() calls graspologic_native.leiden() first and falls back to the graspologic wrapper, then to NetworkX Louvain (#3104). Below Python 3.13 the graspologic distribution supplies that binding as a dependency of its own, so the extra works. From 3.13 graspologic's metadata excludes the interpreter, so `uv tool install "graphifyy[leiden]"` installs nothing at all, the native import fails, and clustering silently drops to Louvain -- users lose Leiden's connectivity guarantee with no diagnostic, and the README documents the limitation rather than a way around it. graspologic-native publishes cp39-abi3 wheels for Linux, macOS and Windows, so naming the binding directly on 3.13+ restores Leiden with no compiler and without graspologic's umap/pynndescent/numba install chain. The two arms are complementary and exhaustive, so `[leiden]` installs a working backend on every supported interpreter and existing installs below 3.13 resolve to exactly what they resolve to today. The ceiling on the 3.13+ arm is the one graspologic itself sets on the same package. --- README.md | 2 +- pyproject.toml | 16 ++- tests/test_backend_extras.py | 25 ++++ uv.lock | 226 ++++++++++++++++++----------------- 4 files changed, 155 insertions(+), 114 deletions(-) diff --git a/README.md b/README.md index d83ea76c0c..5d39903c4d 100644 --- a/README.md +++ b/README.md @@ -255,7 +255,7 @@ Codex users also need `multi_agent = true` under `[features]` in `~/.codex/confi | `neo4j` | Neo4j push support | `uv tool install "graphifyy[neo4j]"` | | `falkordb` | FalkorDB push support | `uv tool install "graphifyy[falkordb]"` | | `svg` | SVG graph export | `uv tool install "graphifyy[svg]"` | -| `leiden` | Leiden community detection (Python < 3.13 only) | `uv tool install "graphifyy[leiden]"` | +| `leiden` | Leiden community detection (Python < 3.13: graspologic; 3.13+: the native abi3 wheel) | `uv tool install "graphifyy[leiden]"` | | `ollama` | Ollama local inference | `uv tool install "graphifyy[ollama]"` | | `openai` | OpenAI / OpenAI-compatible APIs | `uv tool install "graphifyy[openai]"` | | `gemini` | Google Gemini API | `uv tool install "graphifyy[gemini]"` | diff --git a/pyproject.toml b/pyproject.toml index 7fd891dc85..0fd1773b2c 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -62,7 +62,19 @@ falkordb = ["falkordb"] pdf = ["pypdf>=6.12.0", "markdownify"] watch = ["watchdog"] svg = ["matplotlib", "numpy>=2.0; python_version >= '3.13'"] -leiden = ["graspologic; python_version < '3.13'"] +# _partition() calls graspologic_native.leiden() directly (#3104). Below 3.13 the +# graspologic distribution supplies that binding as a dependency of its own; from 3.13 +# graspologic's metadata excludes the interpreter, so name the binding directly there +# and Leiden keeps working instead of silently falling back to NetworkX Louvain. The +# arms are exhaustive, so `[leiden]` installs a working backend on every supported +# interpreter. Ceiling: _native_leiden() passes eight exact keyword arguments and +# swallows every exception, so a breaking major would return None and degrade to +# Louvain silently -- the bug this gate exists to fix. It also keeps the arms +# symmetric, since graspologic caps the same package below 2.0 on the other arm. +leiden = [ + "graspologic; python_version < '3.13'", + "graspologic-native>=1.2.1,<2.0.0; python_version >= '3.13'", +] office = ["python-docx", "openpyxl"] google = ["openpyxl"] # --postgres reconstructs DDL and feeds it to extract_sql(), which needs the @@ -98,7 +110,7 @@ commonlisp = ["tree-sitter-commonlisp"] # every platform, no C toolchain; optional because Robot Framework corpora are # QA-automation specific. robot = ["robotframework>=4.0"] -all = ["mcp>=1,<3", "starlette>=1.3.1,<2", "neo4j", "falkordb", "pypdf>=6.12.0", "markdownify", "watchdog", "graspologic; python_version < '3.13'", "python-docx", "openpyxl", "faster-whisper; python_version >= '3.11'", "yt-dlp>=2026.6.9", "matplotlib", "numpy>=2.0; python_version >= '3.13'", "openai", "tiktoken", "boto3", "anthropic", "tree-sitter-sql", "jieba", "tree-sitter-dm", "tree-sitter-hcl", "tree-sitter-pascal", "tree-sitter-ocaml", "tree-sitter-commonlisp", "robotframework>=4.0"] +all = ["mcp>=1,<3", "starlette>=1.3.1,<2", "neo4j", "falkordb", "pypdf>=6.12.0", "markdownify", "watchdog", "graspologic; python_version < '3.13'", "graspologic-native>=1.2.1,<2.0.0; python_version >= '3.13'", "python-docx", "openpyxl", "faster-whisper; python_version >= '3.11'", "yt-dlp>=2026.6.9", "matplotlib", "numpy>=2.0; python_version >= '3.13'", "openai", "tiktoken", "boto3", "anthropic", "tree-sitter-sql", "jieba", "tree-sitter-dm", "tree-sitter-hcl", "tree-sitter-pascal", "tree-sitter-ocaml", "tree-sitter-commonlisp", "robotframework>=4.0"] [project.scripts] graphify = "graphify.__main__:main" diff --git a/tests/test_backend_extras.py b/tests/test_backend_extras.py index f513c57dc0..94133a6f2c 100644 --- a/tests/test_backend_extras.py +++ b/tests/test_backend_extras.py @@ -39,3 +39,28 @@ def test_backend_pkg_hint_points_at_uv_tool_and_extra(): assert "uv tool install" in msg assert 'graphifyy[anthropic]' in msg assert "pip install anthropic" in msg # pip/venv fallback still mentioned + + +def _leiden_arms(extras: dict) -> dict[str, str]: + """Map each `leiden` requirement to its interpreter marker.""" + return {dep.split(";")[0].strip(): dep.partition(";")[2].strip() for dep in extras["leiden"]} + + +def test_leiden_extra_installs_a_working_backend_on_every_supported_python(): + """`_partition()` calls graspologic_native.leiden() first and falls back to + NetworkX Louvain when the binding is absent. graspologic's own metadata stops at + 3.13, so below that it supplies the binding and from 3.13 the extra must name it + directly -- otherwise `[leiden]` installs nothing on a current interpreter and + clustering silently loses Leiden. The two arms must stay complementary and + exhaustive, or some interpreter is left with no backend.""" + arms = _leiden_arms(_extras()) + assert arms.get("graspologic") == "python_version < '3.13'", f"below-3.13 arm: {arms}" + native = [pkg for pkg in arms if pkg.startswith("graspologic-native")] + assert len(native) == 1, f"expected exactly one graspologic-native arm, got {arms}" + assert arms[native[0]] == "python_version >= '3.13'", f"3.13+ arm: {arms}" + assert len(arms) == 2, f"a third arm leaves the gate ambiguous: {arms}" + + +def test_all_extra_gates_leiden_the_same_way(): + extras = _extras() + assert set(extras["leiden"]) <= set(extras["all"]), "[all] must carry both leiden arms" diff --git a/uv.lock b/uv.lock index 888412e056..f3dd34ff54 100644 --- a/uv.lock +++ b/uv.lock @@ -6,10 +6,10 @@ resolution-markers = [ "python_full_version >= '3.14' and sys_platform == 'emscripten'", "python_full_version >= '3.14' and sys_platform != 'emscripten' and sys_platform != 'win32'", "python_full_version == '3.13.*' and sys_platform == 'win32'", - "python_full_version >= '3.11' and python_full_version < '3.13' and sys_platform == 'win32'", "python_full_version == '3.13.*' and sys_platform == 'emscripten'", - "python_full_version >= '3.11' and python_full_version < '3.13' and sys_platform == 'emscripten'", "python_full_version == '3.13.*' and sys_platform != 'emscripten' and sys_platform != 'win32'", + "python_full_version >= '3.11' and python_full_version < '3.13' and sys_platform == 'win32'", + "python_full_version >= '3.11' and python_full_version < '3.13' and sys_platform == 'emscripten'", "python_full_version >= '3.11' and python_full_version < '3.13' and sys_platform != 'emscripten' and sys_platform != 'win32'", "python_full_version < '3.11'", ] @@ -97,7 +97,7 @@ name = "autograd" version = "1.8.0" source = { registry = "https://pypi.org/simple" } dependencies = [ - { name = "numpy", version = "1.26.4", source = { registry = "https://pypi.org/simple" }, marker = "python_full_version < '3.13'" }, + { name = "numpy", version = "1.26.4", source = { registry = "https://pypi.org/simple" } }, ] sdist = { url = "https://files.pythonhosted.org/packages/67/1c/3c24ec03c8ba4decc742b1df5a10c52f98c84ca8797757f313e7bdcdf276/autograd-1.8.0.tar.gz", hash = "sha256:107374ded5b09fc8643ac925348c0369e7b0e73bbed9565ffd61b8fd04425683", size = 2562146, upload-time = "2025-05-05T12:49:02.502Z" } wheels = [ @@ -477,7 +477,7 @@ resolution-markers = [ "python_full_version < '3.11'", ] dependencies = [ - { name = "numpy", version = "1.26.4", source = { registry = "https://pypi.org/simple" }, marker = "python_full_version < '3.11'" }, + { name = "numpy", version = "1.26.4", source = { registry = "https://pypi.org/simple" } }, ] sdist = { url = "https://files.pythonhosted.org/packages/66/54/eb9bfc647b19f2009dd5c7f5ec51c4e6ca831725f1aea7a993034f483147/contourpy-1.3.2.tar.gz", hash = "sha256:b6945942715a034c671b7fc54f9588126b0b8bf23db2696e3ca8328f3ff0ab54", size = 13466130, upload-time = "2025-04-15T17:47:53.79Z" } wheels = [ @@ -548,14 +548,14 @@ resolution-markers = [ "python_full_version >= '3.14' and sys_platform == 'emscripten'", "python_full_version >= '3.14' and sys_platform != 'emscripten' and sys_platform != 'win32'", "python_full_version == '3.13.*' and sys_platform == 'win32'", - "python_full_version >= '3.11' and python_full_version < '3.13' and sys_platform == 'win32'", "python_full_version == '3.13.*' and sys_platform == 'emscripten'", - "python_full_version >= '3.11' and python_full_version < '3.13' and sys_platform == 'emscripten'", "python_full_version == '3.13.*' and sys_platform != 'emscripten' and sys_platform != 'win32'", + "python_full_version >= '3.11' and python_full_version < '3.13' and sys_platform == 'win32'", + "python_full_version >= '3.11' and python_full_version < '3.13' and sys_platform == 'emscripten'", "python_full_version >= '3.11' and python_full_version < '3.13' and sys_platform != 'emscripten' and sys_platform != 'win32'", ] dependencies = [ - { name = "numpy", version = "1.26.4", source = { registry = "https://pypi.org/simple" }, marker = "python_full_version >= '3.11' and python_full_version < '3.13'" }, + { name = "numpy", version = "1.26.4", source = { registry = "https://pypi.org/simple" }, marker = "python_full_version < '3.13'" }, { name = "numpy", version = "2.4.6", source = { registry = "https://pypi.org/simple" }, marker = "python_full_version >= '3.13'" }, ] sdist = { url = "https://files.pythonhosted.org/packages/58/01/1253e6698a07380cd31a736d248a3f2a50a7c88779a1813da27503cadc2a/contourpy-1.3.3.tar.gz", hash = "sha256:083e12155b210502d0bca491432bb04d56dc3432f95a979b429f2848c3dbe880", size = 13466174, upload-time = "2025-07-26T12:03:12.549Z" } @@ -813,10 +813,10 @@ name = "ctranslate2" version = "4.7.1" source = { registry = "https://pypi.org/simple" } dependencies = [ - { name = "numpy", version = "1.26.4", source = { registry = "https://pypi.org/simple" }, marker = "python_full_version >= '3.11' and python_full_version < '3.13'" }, + { name = "numpy", version = "1.26.4", source = { registry = "https://pypi.org/simple" }, marker = "python_full_version < '3.13'" }, { name = "numpy", version = "2.4.6", source = { registry = "https://pypi.org/simple" }, marker = "python_full_version >= '3.13'" }, - { name = "pyyaml", marker = "python_full_version >= '3.11'" }, - { name = "setuptools", marker = "python_full_version >= '3.11'" }, + { name = "pyyaml" }, + { name = "setuptools" }, ] wheels = [ { url = "https://files.pythonhosted.org/packages/cb/e0/b69c40c3d739b213a78d327071240590792071b4f890e34088b03b95bb1e/ctranslate2-4.7.1-cp310-cp310-macosx_11_0_arm64.whl", hash = "sha256:9017a355dd7c6d29dc3bca6e9fc74827306c61b702c66bb1f6b939655e7de3fa", size = 1255773, upload-time = "2026-02-04T06:11:04.769Z" }, @@ -926,7 +926,7 @@ name = "exceptiongroup" version = "1.3.1" source = { registry = "https://pypi.org/simple" } dependencies = [ - { name = "typing-extensions", marker = "python_full_version < '3.11'" }, + { name = "typing-extensions" }, ] sdist = { url = "https://files.pythonhosted.org/packages/50/79/66800aadf48771f6b62f7eb014e352e5d06856655206165d775e675a02c9/exceptiongroup-1.3.1.tar.gz", hash = "sha256:8b412432c6055b0b7d14c310000ae93352ed6754f70fa8f7c34141f91c4e3219", size = 30371, upload-time = "2025-11-21T23:01:54.787Z" } wheels = [ @@ -951,12 +951,12 @@ name = "faster-whisper" version = "1.2.1" source = { registry = "https://pypi.org/simple" } dependencies = [ - { name = "av", marker = "python_full_version >= '3.11'" }, - { name = "ctranslate2", marker = "python_full_version >= '3.11'" }, - { name = "huggingface-hub", marker = "python_full_version >= '3.11'" }, - { name = "onnxruntime", marker = "python_full_version >= '3.11'" }, - { name = "tokenizers", marker = "python_full_version >= '3.11'" }, - { name = "tqdm", marker = "python_full_version >= '3.11'" }, + { name = "av" }, + { name = "ctranslate2" }, + { name = "huggingface-hub" }, + { name = "onnxruntime" }, + { name = "tokenizers" }, + { name = "tqdm" }, ] wheels = [ { url = "https://files.pythonhosted.org/packages/05/99/49ee85903dee060d9f08297b4a342e5e0bcfca2f027a07b4ee0a38ab13f9/faster_whisper-1.2.1-py3-none-any.whl", hash = "sha256:79a66ad50688c0b794dd501dc340a736992a6342f7f95e5811be60b5224a26a7", size = 1118909, upload-time = "2025-10-31T11:35:47.794Z" }, @@ -1059,10 +1059,10 @@ name = "gensim" version = "4.4.0" source = { registry = "https://pypi.org/simple" } dependencies = [ - { name = "numpy", version = "1.26.4", source = { registry = "https://pypi.org/simple" }, marker = "python_full_version < '3.13'" }, - { name = "scipy", version = "1.15.3", source = { registry = "https://pypi.org/simple" }, marker = "python_full_version < '3.11'" }, + { name = "numpy", version = "1.26.4", source = { registry = "https://pypi.org/simple" } }, + { name = "scipy", version = "1.15.3", source = { registry = "https://pypi.org/simple" }, marker = "python_full_version < '3.11' or python_full_version >= '3.13'" }, { name = "scipy", version = "1.17.1", source = { registry = "https://pypi.org/simple" }, marker = "python_full_version >= '3.11' and python_full_version < '3.13'" }, - { name = "smart-open", marker = "python_full_version < '3.13'" }, + { name = "smart-open" }, ] sdist = { url = "https://files.pythonhosted.org/packages/1a/80/fe9d2e1ace968041814dbcfce4e8499a643a36c41267fa4b6c4f54cce420/gensim-4.4.0.tar.gz", hash = "sha256:a3f5b626da5518e79a479140361c663089fe7998df8ba52d56e1ded71ac5bdf5", size = 23260095, upload-time = "2025-10-18T02:06:45.962Z" } wheels = [ @@ -1133,6 +1133,7 @@ all = [ { name = "falkordb" }, { name = "faster-whisper", marker = "python_full_version >= '3.11'" }, { name = "graspologic", marker = "python_full_version < '3.13'" }, + { name = "graspologic-native", marker = "python_full_version >= '3.13'" }, { name = "jieba" }, { name = "markdownify" }, { name = "matplotlib" }, @@ -1186,6 +1187,7 @@ kimi = [ ] leiden = [ { name = "graspologic", marker = "python_full_version < '3.13'" }, + { name = "graspologic-native", marker = "python_full_version >= '3.13'" }, ] mcp = [ { name = "mcp" }, @@ -1273,6 +1275,8 @@ requires-dist = [ { name = "faster-whisper", marker = "python_full_version >= '3.11' and extra == 'video'" }, { name = "graspologic", marker = "python_full_version < '3.13' and extra == 'all'" }, { name = "graspologic", marker = "python_full_version < '3.13' and extra == 'leiden'" }, + { name = "graspologic-native", marker = "python_full_version >= '3.13' and extra == 'all'", specifier = ">=1.2.1,<2.0.0" }, + { name = "graspologic-native", marker = "python_full_version >= '3.13' and extra == 'leiden'", specifier = ">=1.2.1,<2.0.0" }, { name = "jieba", marker = "extra == 'all'" }, { name = "jieba", marker = "extra == 'chinese'" }, { name = "markdownify", marker = "extra == 'all'" }, @@ -1381,26 +1385,26 @@ name = "graspologic" version = "3.4.4" source = { registry = "https://pypi.org/simple" } dependencies = [ - { name = "anytree", marker = "python_full_version < '3.13'" }, - { name = "beartype", marker = "python_full_version < '3.13'" }, - { name = "future", marker = "python_full_version < '3.13'" }, - { name = "gensim", marker = "python_full_version < '3.13'" }, - { name = "graspologic-native", marker = "python_full_version < '3.13'" }, - { name = "hyppo", marker = "python_full_version < '3.13'" }, - { name = "joblib", marker = "python_full_version < '3.13'" }, - { name = "matplotlib", marker = "python_full_version < '3.13'" }, - { name = "networkx", version = "3.4.2", source = { registry = "https://pypi.org/simple" }, marker = "python_full_version < '3.11'" }, + { name = "anytree" }, + { name = "beartype" }, + { name = "future" }, + { name = "gensim" }, + { name = "graspologic-native" }, + { name = "hyppo" }, + { name = "joblib" }, + { name = "matplotlib" }, + { name = "networkx", version = "3.4.2", source = { registry = "https://pypi.org/simple" }, marker = "python_full_version < '3.11' or python_full_version >= '3.13'" }, { name = "networkx", version = "3.6.1", source = { registry = "https://pypi.org/simple" }, marker = "python_full_version >= '3.11' and python_full_version < '3.13'" }, - 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