diff --git a/.devcontainer/devcontainer.json b/.devcontainer/devcontainer.json index 4353f5f..eb9cce3 100644 --- a/.devcontainer/devcontainer.json +++ b/.devcontainer/devcontainer.json @@ -4,6 +4,11 @@ "dockerfile": "Dockerfile" }, "remoteUser": "vscode", + "features": { + "ghcr.io/devcontainers/features/node:1": { + "version": "22" + } + }, "customizations": { "vscode": { "settings": { diff --git a/.github/workflows/docpages.yml b/.github/workflows/docpages.yml index edb0ef1..d99dd7d 100644 --- a/.github/workflows/docpages.yml +++ b/.github/workflows/docpages.yml @@ -1,4 +1,4 @@ -# Simple workflow for deploying static content to GitHub Pages +# Build the Fumadocs site under docs/ and deploy it to GitHub Pages name: Documentation # specify which events will trigger this workflow @@ -19,7 +19,7 @@ on: # Allows you to run this workflow manually from the Actions tab workflow_dispatch: - # Sets permissions of the GITHUB_TOKEN to allow deployment to GitHub Pages +# Sets permissions of the GITHUB_TOKEN to allow deployment to GitHub Pages permissions: contents: read pages: write @@ -37,10 +37,20 @@ env: jobs: build: runs-on: ubuntu-latest + + defaults: + run: + working-directory: docs + + env: + # The site is served from algorithmiq.github.io/src-method. + NEXT_PUBLIC_BASE_PATH: /src-method + steps: - name: Checkout uses: actions/checkout@v7 with: + # grab the history, so hatch-vcs can compute the version number fetch-depth: 0 - name: Install the latest version of uv @@ -49,21 +59,42 @@ jobs: enable-cache: true python-version: "3.14" - - name: Install package - run: | - uv sync --group docs + - name: Set up Node.js + uses: actions/setup-node@v7 + with: + node-version: 22 + cache: npm + cache-dependency-path: docs/package-lock.json - - name: Python environment information + - name: Install dependencies run: | - uv tree + uv sync --no-dev --group docs + npm ci - name: Get src_method version run: | - uv run python -c "import src_method; print(src_method.__version__)" + uv run --no-sync python -c "import src_method; print(src_method.__version__)" + + - name: Generate the API reference + run: | + uv run --no-sync python scripts/gen_api_dump.py src_method -d . + node scripts/generate-api.mjs + + - name: Run the examples in the prose pages + working-directory: . + run: >- + uv run --no-sync python -m pytest --markdown-docs -p no:cacheprovider + docs/content/docs + --ignore=docs/content/docs/api + --ignore=docs/content/docs/tutorials + + - name: Execute the tutorial notebooks + run: | + uv run --no-sync python scripts/notebooks_to_mdx.py - - name: Build docs + - name: Build the static site run: | - uv run mkdocs build + npm run build - name: Setup Pages if: ${{ github.ref == 'refs/heads/main' }} @@ -73,8 +104,7 @@ jobs: if: ${{ github.ref == 'refs/heads/main' }} uses: actions/upload-pages-artifact@v5 with: - # Upload entire repository - path: site + path: docs/out deploy: if: ${{ github.ref == 'refs/heads/main' }} diff --git a/.gitignore b/.gitignore index d00c338..ca75eea 100644 --- a/.gitignore +++ b/.gitignore @@ -51,7 +51,8 @@ dist/ downloads/ eggs/ .eggs/ -lib/ +# using lib/ would exclude the docs/src/lib directory used by next.js +/lib/ lib64/ parts/ sdist/ @@ -172,8 +173,6 @@ venv.bak/ # Rope project settings .ropeproject -# mkdocs documentation -/site # mypy .mypy_cache/ diff --git a/AGENTS.md b/AGENTS.md index 3fd0018..b0c6d35 100644 --- a/AGENTS.md +++ b/AGENTS.md @@ -31,8 +31,10 @@ tensor, so there is no wrapper type. skipped lint is a red PR. - Changes to the API or to user-facing behavior -- developers included, e.g. workflows or test layout -- belong in the docs and, when relevant, in - `README.md`. `docs/developer-guide/` covers versioning, dependencies and how - to write tests; read it before changing any of those. + `README.md`. `docs/content/docs/contributing/` covers versioning, + dependencies, tests and the docs site; read it before changing any of those. + Python blocks in the docs pages run in CI: keep them self-contained, or mark + them `python notest`. ## Git and PRs @@ -49,8 +51,9 @@ Package `src/src_method/`: `apply.py` and `compress.py` are the public entry points, `_tensor_train.py` holds the shared train helpers, `utils/_backend.py` the NumPy/CuPy dispatch and `utils/linalg.py` the decompositions. Tests in `tests/`, benchmarks in `benches/` with recorded results in -`baseline-benchmarks/`, MkDocs sources in `docs/`, throwaway scripts in -`sandbox/`. +`baseline-benchmarks/`, the Fumadocs site in `docs/` (MDX pages in +`docs/content/docs/`, tutorial notebooks in `docs/notebooks/`), throwaway +scripts in `sandbox/`. `src/src_method/_version.py` is generated by `hatch-vcs` -- never edit it. @@ -65,9 +68,13 @@ uv run pytest -m "not slow" # fast suite uv run pytest # everything uv run ruff check src/ tests/ uv run ty check src/ -uv run mkdocs serve ``` +Docs site (Node.js 22+), from `docs/`: `npm ci`, then +`uv run python scripts/gen_api_dump.py src_method -d .`, +`node scripts/generate-api.mjs`, `uv run python scripts/notebooks_to_mdx.py` +and `npm run dev`. + ## Notes - `filterwarnings = ["error"]` is on: a stray warning fails the suite. Networks diff --git a/README.md b/README.md index a8862a5..70292b3 100644 --- a/README.md +++ b/README.md @@ -1,6 +1,6 @@ # Successive Randomized Compression -[![Documentation](https://github.com/Algorithmiq/src-method/actions/workflows/docpages.yml/badge.svg)](https://docs.algorithmiq.fi/src-method) +[![Documentation](https://github.com/Algorithmiq/src-method/actions/workflows/docpages.yml/badge.svg)](https://algorithmiq.github.io/src-method/) [![Test src_method](https://github.com/Algorithmiq/src-method/actions/workflows/test.yml/badge.svg)](https://github.com/Algorithmiq/src-method/actions/workflows/test.yml) [![License](https://img.shields.io/badge/License-Apache_2.0-blue.svg)](LICENSE) @@ -25,7 +25,7 @@ from src_method import apply, compress, src The `apply` function covers cases 1 and 2 above, the `compress` function cases 3 and 4, and `src` all five: `apply` and `compress` are its two- and one-train special cases. All three functions are pure, meaning no in-place modification ever happens. The user should manage the assignment of the returned objects, possibly overwriting the input variables. -See the [reference documentation](algorithmiq.github.io/src_method/) for details, and the [tests](tests/) or [benchmarks](benches/) folders for usage examples. +See the [reference documentation](https://algorithmiq.github.io/src-method/) for details, and the [tests](tests/) or [benchmarks](benches/) folders for usage examples. Whether a train is an MPS or an MPO is inferred from the rank of its first site tensor, so no wrapper type is needed. @@ -193,18 +193,23 @@ you. Run `prek install --prepare-hooks` once after the first `nix develop`. ## Documentation -We use [MkDocs] to generate our documentation pages. You can find the latest version [at this link]. +The documentation is a [Fumadocs] site under `docs/`, published [at this link]. +It covers concepts, features, tutorials, the API reference generated from the +docstrings, and the developer guide. -We encourage you to build the documentation locally, so you can check that newer -documentation you might have added looks as it should. +To preview it locally you need [Node.js] 22 or later: -To do so, open a terminal in [Visual Studio Code] and run: - -``` -mkdocs serve +```bash +uv sync --group docs +cd docs +npm ci +uv run python scripts/gen_api_dump.py src_method -d . +node scripts/generate-api.mjs +uv run python scripts/notebooks_to_mdx.py +npm run dev ``` -the editor will prompt you to open a new page in your browser, where you can see the rendered documentation. +and open http://localhost:3000. See [`docs/README.md`](docs/README.md) for details. [DevContainer]: https://containers.dev/ [Docker]: https://docs.docker.com/get-docker/ @@ -214,5 +219,6 @@ the editor will prompt you to open a new page in your browser, where you can see [Nix]: https://nixos.org/download/ [direnv]: https://direnv.net/ [uv]: https://docs.astral.sh/uv/ -[MkDocs]: https://www.mkdocs.org/ -[at this link]: https://docs.algorithmiq.fi/src_method +[Fumadocs]: https://fumadocs.dev +[Node.js]: https://nodejs.org +[at this link]: https://algorithmiq.github.io/src-method/ diff --git a/docs/.gitignore b/docs/.gitignore new file mode 100644 index 0000000..6e3a091 --- /dev/null +++ b/docs/.gitignore @@ -0,0 +1,31 @@ +# deps +/node_modules + +# generated content +.source +# griffe dump + generated API reference and tutorial MDX (produced by +# docs/scripts/gen_api_dump.py, generate-api.mjs and notebooks_to_mdx.py) +/src_method.json +/content/docs/api/ +/content/docs/tutorials/ + +# test & build +/coverage +/.next/ +/out/ +/build +*.tsbuildinfo + +# misc +.DS_Store +*.pem +/.pnp +.pnp.js +npm-debug.log* +yarn-debug.log* +yarn-error.log* + +# others +.env*.local +.vercel +next-env.d.ts diff --git a/docs/README.md b/docs/README.md new file mode 100644 index 0000000..41dbe4b --- /dev/null +++ b/docs/README.md @@ -0,0 +1,27 @@ +# src_method documentation site + +A [Fumadocs](https://fumadocs.dev) (Next.js) application, exported as static +files and deployed to GitHub Pages by `.github/workflows/docpages.yml`. + +- `content/docs/` holds the hand-written MDX pages; `meta.json` files order the + sidebar. +- `notebooks//.ipynb` are the tutorials, executed at build time. +- `scripts/` generate the API reference from the docstrings and the tutorial + pages from the notebooks. +- `src/` is the Next.js app: layout, components and routes. + +Build it from the repository root with Node.js 22 or later: + +```bash +uv sync --group docs +cd docs +npm ci +uv run python scripts/gen_api_dump.py src_method -d . +node scripts/generate-api.mjs +uv run python scripts/notebooks_to_mdx.py +npm run dev # live preview on http://localhost:3000 +npm run build # static export in out/ +``` + +The Documenting page of the site (`content/docs/contributing/documenting.mdx`) +covers writing pages, cross-references, citations and tutorials. diff --git a/docs/assets/algo_symbol.png b/docs/assets/algo_symbol.png deleted file mode 100644 index a9de3bd..0000000 Binary files a/docs/assets/algo_symbol.png and /dev/null differ diff --git a/docs/bibliography.bib b/docs/bibliography.bib new file mode 100644 index 0000000..93cbfa8 --- /dev/null +++ b/docs/bibliography.bib @@ -0,0 +1,33 @@ +@ARTICLE{camano2026src, + title = "{Successive randomized compression: A randomized algorithm for the compressed MPO-MPS product}", + author = "Camaño, Chris and Epperly, Ethan N. and Tropp, Joel A.", + journal = "Quantum", + volume = 10, + pages = 2022, + year = 2026, + doi = "10.22331/q-2026-03-10-2022", + eprint = "2504.06475", + archivePrefix = "arXiv" +} + +@ARTICLE{halko2011finding, + title = "{Finding structure with randomness: Probabilistic algorithms for constructing approximate matrix decompositions}", + author = "Halko, Nathan and Martinsson, Per-Gunnar and Tropp, Joel A.", + journal = "SIAM Review", + volume = 53, + number = 2, + pages = "217--288", + year = 2011, + doi = "10.1137/090771806" +} + +@ARTICLE{gray2018quimb, + title = "{quimb: A python package for quantum information and many-body calculations}", + author = "Gray, Johnnie", + journal = "Journal of Open Source Software", + volume = 3, + number = 29, + pages = 819, + year = 2018, + doi = "10.21105/joss.00819" +} diff --git a/docs/content/docs/benchmarks.mdx b/docs/content/docs/benchmarks.mdx new file mode 100644 index 0000000..7de691a --- /dev/null +++ b/docs/content/docs/benchmarks.mdx @@ -0,0 +1,53 @@ +--- +title: Benchmarks +description: Accuracy and timing of SRC against quimb and against pairwise application. +--- + +The benchmark scripts live in +[`benches/`](https://github.com/Algorithmiq/src-method/tree/main/benches) and need +the `bench` dependency group. Each folder's README holds the full tables and the +commands to reproduce them. + +## Primitives + +[`benches/primitives`](https://github.com/Algorithmiq/src-method/tree/main/benches/primitives) +compares the MPO-MPO product against `quimb`'s contract-then-compress on the +Leonardo supercomputer at CINECA. One MPO is random, the other a slightly +perturbed identity, so the product is highly compressible. + +| Experiment | CPUs | quimb (s) | src (s) | Speedup | +|---|---|---|---|---| +| 50 sites, $\chi = 50$ | 32 | 164.97 | 11.92 | 13.8x | +| 20 sites, $\chi = 100$ | 32 | 2004.52 | 94.83 | 21x | +| 25 sites, $\chi = 1000$, $\chi_{\text{id}} = 4$ | 112 | 501.82 (rsvd) | 71.01 | 7x | +| 50 sites, $\chi = 1000$, $\chi_{\text{id}} = 4$ | 112 | 1187.82 (rsvd) | 150.11 | 8x | + +At $\chi = 1000$, SRC also used about a sixth of the peak memory of `quimb`. + +## Stacks + +[`benches/stack`](https://github.com/Algorithmiq/src-method/tree/main/benches/stack) +compares one sweep over a [stack](/features/stacks), `src(A_1, ..., A_k, psi)`, +with pairwise application truncating after every product, as a function of the +number of trains. + +- One sweep over the whole stack is at best moderately more accurate. For random + stacks ending in an MPS it has about 20 % lower median error at depth 4; for + random MPO products the gain is at most 8 %; for Trotter layers there is no + systematic difference. +- Both methods sit 2-15x above the best possible error at the same bond + dimension, so the randomized sketch, not compounding across layers, dominates + the error. +- The per-site cost grows with $\chi^2$ times the product of the layer bonds. + Thin Trotter layers run at 0.6-1.4x the pairwise time up to depth 5, while + random MPOs of bond 8 and 16 at depth 4 are 30x and 136x slower. + +| Stack | Depth | $\chi$ | one sweep (s) | pairwise (s) | ratio | +|---|---|---|---|---|---| +| Trotter, 1 layer + MPS | 2 | 64 | 0.0764 | 0.0642 | 1.19 | +| Trotter, 2 layers + MPS | 3 | 64 | 0.0936 | 0.147 | 0.639 | +| Trotter, 3 layers + MPS | 4 | 64 | 0.201 | 0.207 | 0.975 | +| Trotter, 4 layers + MPS | 5 | 64 | 0.384 | 0.283 | 1.36 | +| random $D=8$, 2 layers + MPS | 3 | 64 | 1.67 | 0.52 | 3.21 | +| random $D=8$, 3 layers + MPS | 4 | 64 | 24.7 | 0.837 | 29.5 | +| random $D=16$, 3 layers + MPS | 4 | 64 | 316 | 2.33 | 136 | diff --git a/docs/content/docs/concepts/algorithm.mdx b/docs/content/docs/concepts/algorithm.mdx new file mode 100644 index 0000000..082d4ab --- /dev/null +++ b/docs/content/docs/concepts/algorithm.mdx @@ -0,0 +1,56 @@ +--- +title: The algorithm +description: How SRC contracts and compresses in one randomized sweep. +--- + +Successive Randomized Compression (SRC) [@camano2026src] computes a compressed +approximation of a product of tensor trains, such as $A\,|\psi\rangle$ for an MPO +$A$ and an MPS $|\psi\rangle$, without ever forming the exact product. The exact +product of an MPO with bond dimension $\chi_A$ and an MPS with bond dimension +$\chi_\psi$ has bond dimension $\chi_A \chi_\psi$; compressing it afterwards, as +in the usual contract-then-truncate approach, pays for that intermediate size. +SRC targets the output bond dimension $\chi_{\text{out}}$ directly. + +## Randomized range finding + +The building block is the randomized range finder [@halko2011finding]: to +approximate the column space of a matrix $M$ with rank about $k$, multiply it by a +random Gaussian matrix $\Omega$ with $k$ columns and orthonormalise the result, +$Q = \operatorname{orth}(M\Omega)$. Then $M \approx Q Q^\dagger M$ with high +probability, and the cost is dominated by the product $M\Omega$. + +SRC applies this idea one site at a time along the chain, with the matrix $M$ +being an unfolding of the (never formed) product network. + +## Two sweeps + +1. **Left to right: sketching.** At every site the open physical legs are + contracted with a Gaussian tensor $\Omega_j$ of sketch size + $\chi_{\text{out}}$. Accumulating these from the left gives the sketched + environments $C_j$, each of size $\chi_{\text{out}}$ times the product of the + input bond dimensions. The same sketch index is shared by every site, which + makes the sketch a Khatri-Rao product rather than a dense Gaussian matrix of + the full Hilbert space. +2. **Right to left: orthonormalisation.** Starting from the last site, the + environment $C_j$ is contracted with the site tensors and the projected right + environment $S$, and a QR decomposition of the result gives the new site + tensor as an isometry. The isometry is then folded into $S$ for the next site. + The first site absorbs the remaining weight. + +The output is therefore in right-canonical form, with bond dimension at most +$\chi_{\text{out}}$. Without a [cutoff](/features/cutoff) every inner bond is +$\chi_{\text{out}}$ unless the physical dimensions near the ends of the chain +force it lower. + +## Cost + +For an MPO with bond dimension $\chi_A$ applied to an MPS with bond dimension +$\chi_\psi$, the dominant per-site cost grows like +$\chi_{\text{out}}^2 \chi_A \chi_\psi$, compared with the $(\chi_A\chi_\psi)^3$ of +an exact contraction followed by an SVD-based truncation. The same kernel handles +MPO-MPO products and plain compression; for a [stack](/features/stacks) of trains, +the product of all their bond dimensions replaces $\chi_A\chi_\psi$. + +Being randomized, SRC is not optimal: its error is somewhat above the best +rank-$\chi_{\text{out}}$ truncation, with a gap that shrinks quickly as the +spectrum decays. The [benchmarks](/benchmarks) quantify this on concrete cases. diff --git a/docs/content/docs/concepts/conventions.mdx b/docs/content/docs/concepts/conventions.mdx new file mode 100644 index 0000000..f968ea4 --- /dev/null +++ b/docs/content/docs/concepts/conventions.mdx @@ -0,0 +1,69 @@ +--- +title: Conventions +description: The array layout of MPS and MPO sites, and the contraction order. +--- + +## Index order + +The array layout follows the default `quimb` tensor indexing conventions +[@gray2018quimb], so results round-trip through `quimb` without any permutation: + +```python +import quimb.tensor as qtn + +from src_method import apply + +H1 = qtn.MPO_rand(6, bond_dim=4, seed=0) +H2 = qtn.MPO_rand(6, bond_dim=4, seed=1) + +result = qtn.MatrixProductOperator(apply(H1.arrays, H2.arrays, chi_out=16)) +``` + +- **MPO tensors:** bulk tensors have index order `('l', 'r', 'u', 'd')`. Boundary + tensors are rank 3, dropping the outer `'l'` or `'r'` index. +- **MPS tensors:** bulk tensors have index order `('l', 'r', 'u')`. Boundary + tensors are rank 2, dropping the outer bond index. + +Here `'l'` and `'r'` are the left and right virtual bonds and `'u'` and `'d'` are +the upper and lower physical legs. Keep this in mind when building or +manipulating site arrays directly. + +The kind of a train is inferred from the rank of its first site: rank 2 is an +MPS, rank 3 an MPO. Only open-boundary trains are supported; periodic ones are +rejected with an error. + +## Contraction order + +[`src`](/api/stack#src) contracts a *stack* of trains, written in mathematical +order: + +```python notest +state = src(U3, U2, U1, psi, chi_out=64) # U3 U2 U1 |psi>, U1 acts first +``` + +Each contraction joins the `'d'` leg of a train with the `'u'` leg (or the +physical leg of an MPS) of the train to its right: + +| Stack | Contraction | Result | +|---|---|---| +| `src(A)`, `src(psi)` | none | compressed MPO or MPS | +| `src(A, B, ...)` | `A.d` with `B.u` | MPO | +| `src(A, ..., psi)` | `A.d` with `psi` | MPS on the `'u'` leg of `A` (a ket) | +| `src(phi, A, ...)` | `phi` with `A.u` | MPS on the `'d'` leg of the last MPO (a bra) | + +An MPS may appear only first or last, and not both. `apply(A, B)` and +`compress(A)` are the two- and one-train cases; `apply` accepts only an MPO on the +left. + +## Bras are not conjugated + +A leading MPS is a row vector used **without conjugation**: `src(phi, A, B)` +computes $\phi^T A B$, which equals `src(Bᵀ, Aᵀ, phi)` with $^T$ swapping the `'u'` +and `'d'` legs. For the physical bra $\langle\psi| A B$, conjugate first: + +```python notest +bra = src([t.conj() for t in psi], A, B, chi_out=64) +``` + +The result then pairs with a ket by plain contraction, with no further +conjugation. diff --git a/docs/content/docs/concepts/index.mdx b/docs/content/docs/concepts/index.mdx new file mode 100644 index 0000000..4821f70 --- /dev/null +++ b/docs/content/docs/concepts/index.mdx @@ -0,0 +1,9 @@ +--- +title: Concepts +description: The SRC algorithm and the conventions every function expects. +--- + + + + + diff --git a/docs/content/docs/concepts/meta.json b/docs/content/docs/concepts/meta.json new file mode 100644 index 0000000..e04bd90 --- /dev/null +++ b/docs/content/docs/concepts/meta.json @@ -0,0 +1,4 @@ +{ + "title": "Concepts", + "pages": ["algorithm", "conventions"] +} diff --git a/docs/content/docs/contributing/dependencies.mdx b/docs/content/docs/contributing/dependencies.mdx new file mode 100644 index 0000000..890481b --- /dev/null +++ b/docs/content/docs/contributing/dependencies.mdx @@ -0,0 +1,38 @@ +--- +title: Dependencies +description: Dependency groups and how to change them. +--- + +Dependencies are managed with [uv](https://docs.astral.sh/uv/) and declared in +`pyproject.toml`: + +- **Runtime dependencies** (`[project] dependencies`) are what users install: + NumPy and `opt_einsum`. Keep this list short; every entry is imposed on every + downstream project. +- **Extras** (`[project.optional-dependencies]`) enable optional features in + production: `gpu-nvidia` and `gpu-rocm` add CuPy. +- **Dependency groups** (`[dependency-groups]`) are for development only and are + never installed by users: + - `test`: `pytest`, its plugins, and `quimb` to build reference networks; + - `bench`: what the scripts under `benches/` import (`cyclopts`, `quimb`, + `scipy`); + - `dev`: the linters, type checker and hooks, plus `test` and `bench`; + - `interactive`: Jupyter and plotting for notebooks; + - `docs`: what this site's build needs, plus `test` and `interactive`. + +## Why uv? + +- Its lockfile is compact and multi-platform. +- It gives granular control over which index each dependency comes from, which + matters with private indexes. +- It is very fast. + +## Changing dependencies + +1. Edit `pyproject.toml`. +2. Run `uv sync --all-groups` to update the environment and regenerate + `uv.lock`, and commit both files. The `uv-lock` hook fails if they disagree. + +Declare the oldest version that works rather than the one you happen to have +installed: a high floor stops users from installing `src_method` next to anything +that has not caught up yet. diff --git a/docs/content/docs/contributing/documenting.mdx b/docs/content/docs/contributing/documenting.mdx new file mode 100644 index 0000000..c5947df --- /dev/null +++ b/docs/content/docs/contributing/documenting.mdx @@ -0,0 +1,55 @@ +--- +title: Documenting +description: How this site is built, and how to add pages, API docs and tutorials. +--- + +This site is a [Fumadocs](https://fumadocs.dev) application under `docs/`, built +with Next.js into a static export and deployed to GitHub Pages by the +`Documentation` workflow. Pull requests build it too, so a broken page fails CI. + +## Building locally + +You need [Node.js](https://nodejs.org) 22 or later and the `docs` dependency +group. From the repository root: + +```bash +uv sync --group docs +cd docs +npm ci +uv run python scripts/gen_api_dump.py src_method -d . # docstrings -> JSON +node scripts/generate-api.mjs # JSON -> content/docs/api +uv run python scripts/notebooks_to_mdx.py # notebooks -> content/docs/tutorials +npm run dev # http://localhost:3000 +``` + +`npm run build` writes the static export to `docs/out`. The generated API pages, +tutorials and `src_method.json` are ignored by git; regenerate them after +changing a docstring or a notebook. + +## Writing pages + +Hand-written pages are MDX under `docs/content/docs/`; each folder's `meta.json` +orders its sidebar entries. Besides Markdown you can use: + +- math with `$...$` and `$$...$$`, rendered by KaTeX; +- citations with `[@key]`, resolved against `docs/bibliography.bib`; add the + formatted entry to the [References](/references) page too; +- cross-references to the API with `[src][]` or `[text][src_method.stack.src]`; +- Fumadocs components such as `` and ``. + +Python code blocks are executed by the `Documentation` workflow with +`pytest --markdown-docs`, so every example must run on its own. Mark a block that +cannot, for instance one that needs a GPU, with `python notest`. + +## API reference + +The [Python API](/api) pages are generated from the docstrings of the modules +listed in `MODULES` in `docs/scripts/generate-api.mjs`. Write Google-style +docstrings; `Args`, `Returns` and `Raises` sections are rendered as such. + +## Tutorials + +Each tutorial is a notebook at `docs/notebooks//.ipynb`. The build +executes it from top to bottom, failing on any cell error, and renders it to a +page whose title is the notebook's first `#` heading. Keep tutorials quick to +run: they execute on every documentation build. diff --git a/docs/content/docs/contributing/index.mdx b/docs/content/docs/contributing/index.mdx new file mode 100644 index 0000000..3fa6b38 --- /dev/null +++ b/docs/content/docs/contributing/index.mdx @@ -0,0 +1,78 @@ +--- +title: Contributing +description: Workflow, quality gates and code style for working on src_method. +--- + +Bug reports, benchmarks on new hardware and algorithmic improvements are all +welcome. The short version lives in +[`CONTRIBUTING.md`](https://github.com/Algorithmiq/src-method/blob/main/CONTRIBUTING.md); +the pages in this section go into detail. + + + + + + + + + +## Contributor License Agreement + +Before we can merge your contribution, you must sign the [Contributor License +Agreement](https://github.com/Algorithmiq/src-method/blob/main/CLA.md). The CLA +bot posts a one-time comment on your first pull request with instructions. + +## Reporting bugs + +[Open an issue](https://github.com/Algorithmiq/src-method/issues/new/choose) with: + +- the versions of `src_method`, `numpy` and, if relevant, `cupy`; +- a minimal reproducer, ideally with a fixed `seed=`; +- the observed and expected behaviour. + +For numerical-accuracy reports, include the bond dimensions, the number of sites, +the `dtype` and the error metric you used. + +## Development setup + +The repository ships a [Dev Container](https://containers.dev/) configuration and +a Nix flake that install every dependency for you. By hand, you need +[`uv`](https://docs.astral.sh/uv/): + +```bash +uv sync --all-groups --all-extras +uv run prek install --prepare-hooks +``` + +## Quality gates + +All of these must pass before a pull request can be merged; +[`prek`](https://github.com/j178/prek) runs the lint, format and type checks on +every commit, and the `Lint` workflow runs the same hooks in CI. + +```bash +uv run prek run --all-files # lint, format, type check, lockfile +uv run pytest -m "not slow" # fast test suite +uv run pytest # full suite, including slow tests +``` + +New behaviour needs a test. Numerical changes need a test that pins the accuracy, +not just the shapes. + +## Pull requests + +- Keep pull requests focused on a single concern. +- Use [Conventional Commits](https://www.conventionalcommits.org/), optionally + with a [gitmoji](https://gitmoji.dev/) after the colon, e.g. + `fix: 🐛 trim terminal bond on the left-to-right sweep`. +- Update the documentation and the docstrings alongside the code. +- If the change affects performance, include before and after numbers and the + hardware they were measured on. + +## Code style + +The project targets Python 3.11+, is checked with `ruff` under a strict rule set +and type-checked with [`ty`](https://github.com/astral-sh/ty). Public functions +carry type hints and Google-style docstrings without types in the argument list. +The algorithms go through `src_method.utils._backend` rather than importing NumPy +or CuPy directly, so the CPU and GPU paths stay in sync. diff --git a/docs/content/docs/contributing/meta.json b/docs/content/docs/contributing/meta.json new file mode 100644 index 0000000..8508fd7 --- /dev/null +++ b/docs/content/docs/contributing/meta.json @@ -0,0 +1,4 @@ +{ + "title": "Contributing", + "pages": ["testing", "documenting", "dependencies", "versioning", "sonarcloud"] +} diff --git a/docs/content/docs/contributing/sonarcloud.mdx b/docs/content/docs/contributing/sonarcloud.mdx new file mode 100644 index 0000000..28893d7 --- /dev/null +++ b/docs/content/docs/contributing/sonarcloud.mdx @@ -0,0 +1,37 @@ +--- +title: SonarCloud +description: Setting up the SonarCloud analysis. +--- + +Adding SonarCloud analysis for `src_method` takes two steps. + +First, ask a software engineer to enable the SonarCloud app for the repository +in Algorithmiq's GitHub organization settings: + +- Go to [Algorithmiq's GitHub organization settings](https://github.com/organizations/Algorithmiq/settings/profile). +- Click on "GitHub Apps" in the left-hand bar. +- Click "Configure" for SonarCloud. +- In the "Repository Access" menu, add `src-method` to the list. +- Click "Save". + +Then, on the SonarCloud dashboard: + +- Go to the [Algorithmiq organization](https://sonarcloud.io/organizations/algorithmiq/projects). +- Click on the **+** in the top right corner and choose **Analyze new project**. +- Add the `src-method` repository from the list. + + +We run SonarCloud through CI: the analysis method (**Administration > Analysis +method**) must **not** be set to Automatic Analysis. + + +Finally, set the `SONAR_TOKEN` secret for the repository: + +- Copy the token from the [project's GitHub Actions configuration](https://sonarcloud.io/project/configuration/GitHubActions?id=Algorithmiq_src_method). +- Go to the [**Secrets and variables** menu for Actions](https://github.com/Algorithmiq/src-method/settings/secrets/actions). +- Click on **New repository secret**, name it `SONAR_TOKEN` and paste the value. +- Repeat the same steps in the [**Secrets and variables** menu for Dependabot](https://github.com/Algorithmiq/src-method/settings/secrets/dependabot). + +The `Publish Tests Results` job of the test workflow then uploads coverage and +reports, which show up on the SonarCloud dashboard. Without the token, the scan +is skipped rather than failing. diff --git a/docs/content/docs/contributing/testing.mdx b/docs/content/docs/contributing/testing.mdx new file mode 100644 index 0000000..d950202 --- /dev/null +++ b/docs/content/docs/contributing/testing.mdx @@ -0,0 +1,97 @@ +--- +title: Testing +description: Layout of the test suite, markers, warnings and logging in tests. +--- + +The tests live in `tests/` and run with `pytest`: + +```bash +uv run pytest -m "not slow" # what pull requests run +uv run pytest # everything +uv run pytest -k cutoff -x # select by name, stop at the first failure +``` + +Always run tests through `pytest`, never as `python tests/test_.py`. + +| File | Covers | +|---|---| +| `test_package.py` | `apply` and `compress` against `quimb` references, validation, precision | +| `test_stack.py` | `src` over stacks and the sweep behind it | +| `test_tensor_train.py` | the shared train helpers in `_tensor_train` | +| `test_logging.py` | the package leaves the host's logging configuration alone | +| `test_gpu_backend.py` | the CuPy path; skipped without CuPy or a GPU | + +## Writing tests + +- Test one behaviour per test, with a name that says which. +- Build reference networks with `quimb` and compare with `distance` or dense + contractions; numerical changes need a test that pins the accuracy, not just + the shapes. +- Pass a fixed `seed` wherever the result is compared exactly. +- Use `pytest.raises` with `match`, so the test fails if a different error is + raised: + +```python +import pytest + +from src_method import compress + + +def test_rejects_zero_chi_out(): + with pytest.raises(ValueError, match="chi_out"): + compress([], chi_out=0) +``` + +- Parametrize instead of copying a test across inputs: + +```python +import numpy as np +import pytest + + +@pytest.mark.parametrize("dtype", [np.float32, np.complex128]) +def test_dtype(dtype): + assert np.zeros(2, dtype=dtype).dtype == dtype +``` + +## Markers + +`--strict-markers` is on, so only the markers declared in `pyproject.toml` exist: + +- `@pytest.mark.slow` for tests that take a minute or more. Pull requests run + `-m "not slow"`, so mark anything long. +- `@pytest.mark.perf` for `pytest-benchmark` tests, which the benchmark job + compares against `main` and fails on a median slowdown of more than 25 %. + +## Warnings are errors + +`filterwarnings = ["error"]` turns any stray warning into a failure. If a warning +is the behaviour under test, assert it with `pytest.warns`. The exact fallback for +networks with fewer than three sites logs a warning rather than raising one, so +tests of that path assert on the log instead, as below. + +## Logging in tests + +`log_cli` is on, so log records show up live while the tests run. To assert on +them, use the `caplog` [fixture](https://docs.pytest.org/en/stable/how-to/logging.html); +the library logs progress at `DEBUG`, so lower the level of the `src_method` +logger first: + +```python +import logging + +import quimb.tensor as qtn + +from src_method import compress + + +def test_reports_completion(caplog): + caplog.set_level(logging.DEBUG, logger="src_method") + compress(qtn.MPO_rand(4, bond_dim=2, seed=0).arrays, chi_out=2, seed=0) + assert "SRC complete" in caplog.text +``` + +## Coverage + +CI runs the suite with `--cov=src --cov-branch` and reports to SonarCloud. Aim +for every new line to be covered by at least one test. diff --git a/docs/content/docs/contributing/versioning.mdx b/docs/content/docs/contributing/versioning.mdx new file mode 100644 index 0000000..41d0372 --- /dev/null +++ b/docs/content/docs/contributing/versioning.mdx @@ -0,0 +1,25 @@ +--- +title: Versioning +description: How version numbers are computed from git. +--- + +`src_method` follows [semantic versioning](https://semver.org/) and +[PEP 440](https://peps.python.org/pep-0440/). Version numbers are computed from +git by [`hatch-vcs`](https://github.com/ofek/hatch-vcs), which wraps +[`setuptools-scm`](https://setuptools-scm.readthedocs.io) and its [default +scheme](https://setuptools-scm.readthedocs.io/en/latest/usage/#default-versioning-scheme), +so every revision on every branch has an unambiguous version. The build writes it +to `src/src_method/_version.py`, which is generated and never edited by hand. + +The version is available as `src_method.__version__` and looks like +`0.3.3.dev31+gdaa652023.d20261006`: + +- `0.3.3` is the latest tag with its last component increased by one: the + release being worked towards. +- `.dev31` is the number of commits since that tag. +- `+gdaa652023` is the short hash of the current commit. +- `.d20261006` is added only when the working tree has uncommitted changes. + +While in `0.x.y`, breaking changes may occur in minor releases. Commit types +drive the bump: `feat` is a minor change, `fix` a patch, and a `!` marks a +breaking change. diff --git a/docs/content/docs/features/cutoff.mdx b/docs/content/docs/features/cutoff.mdx new file mode 100644 index 0000000..cd8a021 --- /dev/null +++ b/docs/content/docs/features/cutoff.mdx @@ -0,0 +1,33 @@ +--- +title: Adaptive truncation +description: Trim bonds below chi_out with a relative singular-value cutoff. +--- + +By default every inner bond of the output has dimension `chi_out`, even if the +product has lower rank across that cut. Set `cutoff` to trim each bond to its +effective rank: + +```python +import quimb.tensor as qtn + +from src_method import apply + +H = qtn.MPO_identity(8, phys_dim=2) +psi = qtn.MPS_rand_state(8, bond_dim=4, seed=0) + +fixed = apply(H.arrays, psi.arrays, chi_out=32, seed=1) +trimmed = apply(H.arrays, psi.arrays, chi_out=32, cutoff=1e-10, seed=1) + +print([a.shape[0] for a in fixed[1:]]) +print([a.shape[0] for a in trimmed[1:]]) +``` + +During the right-to-left sweep, the QR factorisation at each site is followed by +an SVD of its small `(chi_out, chi_out)` triangular factor, and singular values +below `cutoff * sigma_max` are discarded. The extra cost is negligible next to the +contractions. + +- `cutoff` must lie in `[0.0, 1.0)`; `0.0` (the default) disables trimming. +- `chi_out` remains the upper bound: the cutoff only ever lowers a bond. +- Two-site trains use the exact fallback, which ignores `cutoff` and truncates to + `chi_out`. diff --git a/docs/content/docs/features/gpu.mdx b/docs/content/docs/features/gpu.mdx new file mode 100644 index 0000000..1a4c751 --- /dev/null +++ b/docs/content/docs/features/gpu.mdx @@ -0,0 +1,29 @@ +--- +title: GPU execution +description: Run the sweep on NVIDIA or AMD GPUs through CuPy. +--- + +`src_method` runs on CPU (NumPy) by default and can be accelerated on GPUs +through [CuPy](https://cupy.dev/). Both NVIDIA (CUDA) and AMD (ROCm) GPUs are +supported through optional extras: + +```bash +uv pip install "src_method[gpu-nvidia]" # CUDA 12.x +uv pip install "src_method[gpu-rocm]" # ROCm +``` + +When adding `src_method` to another project's `pyproject.toml`: + +```toml +dependencies = ["src_method[gpu-nvidia]"] +``` + +At runtime, pass `device="gpu"`: + +```python notest +result = apply(H, psi, chi_out=256, device="gpu") +``` + +The inputs can be NumPy or CuPy arrays; they are moved to the device for the +sweep, and the result always comes back as NumPy arrays on the host. Without +CuPy installed, `device="gpu"` raises an `ImportError`. diff --git a/docs/content/docs/features/index.mdx b/docs/content/docs/features/index.mdx new file mode 100644 index 0000000..f5efb3c --- /dev/null +++ b/docs/content/docs/features/index.mdx @@ -0,0 +1,12 @@ +--- +title: Features +description: Stacks, adaptive truncation, precision, GPUs and logging. +--- + + + + + + + + diff --git a/docs/content/docs/features/logging.mdx b/docs/content/docs/features/logging.mdx new file mode 100644 index 0000000..a1b4699 --- /dev/null +++ b/docs/content/docs/features/logging.mdx @@ -0,0 +1,20 @@ +--- +title: Logging +description: Turn on the library's progress and timing messages. +--- + +`src_method` logs through the standard library `logging` module, under the +`src_method` logger, and stays silent by default: it adds only a `NullHandler` +and never touches the root logger or its handlers. + +- Progress and timing of each sweep are logged at `DEBUG`. +- The exact fallback for networks with fewer than three sites logs a `WARNING`. + +To see them, configure logging in your application: + +```python +import logging + +logging.basicConfig(level=logging.INFO) +logging.getLogger("src_method").setLevel(logging.DEBUG) +``` diff --git a/docs/content/docs/features/meta.json b/docs/content/docs/features/meta.json new file mode 100644 index 0000000..b5f5195 --- /dev/null +++ b/docs/content/docs/features/meta.json @@ -0,0 +1,4 @@ +{ + "title": "Features", + "pages": ["stacks", "cutoff", "precision", "gpu", "logging"] +} diff --git a/docs/content/docs/features/precision.mdx b/docs/content/docs/features/precision.mdx new file mode 100644 index 0000000..e6b5efd --- /dev/null +++ b/docs/content/docs/features/precision.mdx @@ -0,0 +1,53 @@ +--- +title: Precision and reproducibility +description: Data types of sketches and results, and seeding. +--- + +## Data types + +The random sketches default to the promoted floating dtype of the inputs, so +single-precision inputs stay single precision and complex inputs get complex +Gaussian sketches. The result has the same dtype as the inputs: + +```python +import numpy as np +import quimb.tensor as qtn + +from src_method import compress + +mps = qtn.MPS_rand_state(6, bond_dim=8, dtype=np.complex64, seed=0) +out = compress(mps.arrays, chi_out=4, seed=1) +assert all(a.dtype == np.complex64 for a in out) +``` + +An explicit `dtype` overrides the sketch dtype, and can promote the result: for +instance, `dtype=np.complex128` on single-precision real inputs returns a +double-precision complex train. + +Complex sketches are circularly symmetric, with real and imaginary parts sharing +the unit variance, and draw from the same random stream as real ones: the same +`seed` gives the same sketches in single and double precision up to rounding. + +## Seeding + +SRC is randomized, so two calls generally return slightly different trains. Pass +an integer `seed` for reproducible results: + +```python +import numpy as np +import quimb.tensor as qtn + +from src_method import compress + +mpo = qtn.MPO_rand(6, bond_dim=8, seed=0) +first = compress(mpo.arrays, chi_out=4, seed=7) +second = compress(mpo.arrays, chi_out=4, seed=7) +assert all(np.array_equal(a, b) for a, b in zip(first, second)) +``` + +## Validation + +`chi_out` must be a positive integer (NumPy integers are accepted, `bool` is +not), and the trains must be open-boundary and agree on their length and the +physical dimensions they join. Invalid input raises a `TypeError` or `ValueError` +naming the culprit before any work is done. diff --git a/docs/content/docs/features/stacks.mdx b/docs/content/docs/features/stacks.mdx new file mode 100644 index 0000000..1806e4e --- /dev/null +++ b/docs/content/docs/features/stacks.mdx @@ -0,0 +1,41 @@ +--- +title: Stacks +description: Contract and compress several trains in a single sweep. +--- + +[`src`](/api/stack#src) accepts any number of trains and compresses their whole +product in one sweep, instead of compressing after every pairwise product: + +```python +import quimb.tensor as qtn + +from src_method import apply, src + +layers = [qtn.MPO_rand(10, bond_dim=2, seed=s) for s in range(3)] +psi = qtn.MPS_rand_state(10, bond_dim=8, seed=3) + +# One sweep over U3 U2 U1 |psi>. +one_shot = src(*(U.arrays for U in layers), psi.arrays, chi_out=32, seed=0) + +# The same product, truncating after every layer. +state = psi.arrays +for U in reversed(layers): + state = apply(U.arrays, state, chi_out=32, seed=0) +``` + +The supported stacks are `MPO^k`, `MPO^k . MPS` and `MPS . MPO^k`; see +[Conventions](/concepts/conventions#contraction-order) for the order and the bra +form. + +## When a single sweep pays off + +The per-site cost of the sweep grows with $\chi_{\text{out}}^2$ times the +*product* of the bond dimensions of all layers, so it grows exponentially with the +depth of the stack. In exchange, a single sweep truncates once instead of once per +layer. In practice that buys at most a moderate gain in accuracy: the error of +the randomized sketch dominates the error compounded across layers. + +Compressing a whole stack at once pays off for shallow stacks of thin layers, such +as two or three Trotter layers; apply anything else pairwise. The [stack +benchmarks](/benchmarks#stacks) measure both accuracy and time against the +pairwise approach. diff --git a/docs/content/docs/getting-started.mdx b/docs/content/docs/getting-started.mdx new file mode 100644 index 0000000..f1a02ac --- /dev/null +++ b/docs/content/docs/getting-started.mdx @@ -0,0 +1,71 @@ +--- +title: Getting Started +description: Install src_method and compress your first product. +--- + +## Installation + +```bash +# CPU only (default) +uv pip install src_method + +# With NVIDIA GPU support (CUDA 12.x) +uv pip install "src_method[gpu-nvidia]" + +# With AMD GPU support (ROCm) +uv pip install "src_method[gpu-rocm]" +``` + +The runtime dependencies are NumPy and `opt_einsum`. The GPU extras add CuPy; +see [GPU execution](/features/gpu). + +## The three entry points + +```python +from src_method import apply, compress, src +``` + +- [`apply`](/api/apply#apply) contracts an MPO with an MPS or another MPO and + compresses the product. +- [`compress`](/api/compress#compress) compresses a single MPS or MPO. +- [`src`](/api/stack#src) contracts a whole stack of trains in one sweep; + `apply` and `compress` are its two- and one-train special cases. + +All three are pure: they never modify their inputs, and return a new list of +site arrays in right-canonical form. Whether a train is an MPS or an MPO is +inferred from the rank of its first site tensor, so there is no wrapper type. + +## A first example + +Apply a random MPO to a random MPS and keep the result at bond dimension 16. +Trains are plain lists of arrays in the [`quimb` layout](/concepts/conventions), +so `quimb` can build the inputs and check the result: + +```python +import quimb.tensor as qtn + +from src_method import apply + +H = qtn.MPO_rand(10, bond_dim=4, phys_dim=2, seed=0) +psi = qtn.MPS_rand_state(10, bond_dim=8, phys_dim=2, seed=1) + +result = apply(H.arrays, psi.arrays, chi_out=32, seed=2) +phi = qtn.MatrixProductState(result) + +exact = H.apply(psi, compress=False) +print(f"max bond: {phi.max_bond()}") +print(f"relative error: {phi.distance(exact) / exact.norm():.2e}") +``` + +The exact product has bond dimension 32, so `chi_out=32` reproduces it +essentially exactly; lower it to trade accuracy for size. Passing `seed` makes the random +sketches, and therefore the result, reproducible. + +Networks with fewer than three sites fall back to an exact SVD-based contraction +and log a warning. + +## Next steps + +- [Concepts](/concepts) explains what SRC does and the index conventions. +- [Features](/features) covers stacks, adaptive truncation and GPUs. +- [Python API](/api) lists every argument. diff --git a/docs/content/docs/index.mdx b/docs/content/docs/index.mdx new file mode 100644 index 0000000..b70d544 --- /dev/null +++ b/docs/content/docs/index.mdx @@ -0,0 +1,55 @@ +--- +title: src_method Documentation +description: Successive Randomized Compression for matrix product states and operators. +--- + +`src_method` is a pure-Python implementation of Successive Randomized +Compression (SRC) [@camano2026src], a randomized algorithm that contracts and +compresses tensor trains in a single sweep. It extends the original MPO-MPS +product to MPO-MPO products, plain compression of an MPS or MPO, and whole +stacks of trains. + +The package has no tensor-network framework dependency: it takes and returns +plain lists of per-site NumPy arrays, in the `quimb` layout [@gray2018quimb], and +runs on GPUs through CuPy. + + +This package is under active development and follows [Semantic +Versioning](https://semver.org/). While in `0.x.y`, breaking changes may occur in +minor releases. Pin your version if you depend on it, and [open an +issue](https://github.com/Algorithmiq/src-method/issues/new/choose) if you have +feedback. + + +New here? Install the package and run the first example in [Getting +Started](/getting-started), then read [Concepts](/concepts) for the algorithm and +the array conventions. + + + + + + + + + +## How the documentation is organised + +**User guide** — use the library. + +- [Getting Started](/getting-started) — installation and a first example. +- [Concepts](/concepts) — how SRC works, and the array layout and contraction + order every function expects. +- [Features](/features) — one-sweep stacks, adaptive truncation, precision and + reproducibility, GPU execution and logging. +- [Tutorials](/tutorials) — runnable notebooks. + +**Reference** — look up details. + +- [Python API](/api) — every public function and argument. +- [Benchmarks](/benchmarks) — accuracy and timing measurements. +- [References](/references) — the papers behind the method. + +**Contributing** — work on `src_method` itself. + +- [Contributing](/contributing) — workflow, quality gates, tests and docs. diff --git a/docs/content/docs/meta.json b/docs/content/docs/meta.json new file mode 100644 index 0000000..a1e7709 --- /dev/null +++ b/docs/content/docs/meta.json @@ -0,0 +1,3 @@ +{ + "pages": ["index", "getting-started", "concepts", "features", "tutorials", "api", "benchmarks", "references", "contributing"] +} diff --git a/docs/content/docs/references.mdx b/docs/content/docs/references.mdx new file mode 100644 index 0000000..3307ca5 --- /dev/null +++ b/docs/content/docs/references.mdx @@ -0,0 +1,37 @@ +--- +title: References +description: The papers behind src_method. +--- + +The SRC algorithm for the compressed MPO-MPS product is introduced in +[@camano2026src]; `src_method` extends it to MPO-MPO products, plain compression +and stacks of trains. It builds on the randomized range finder of +[@halko2011finding]. The array layout follows `quimb` [@gray2018quimb], which the +tests and tutorials also use to build reference networks. + +## Bibliography + +
    +
  1. + C. Camaño, E. N. Epperly, and J. A. Tropp, + "Successive randomized compression: A randomized algorithm for the + compressed MPO-MPS product," + Quantum, vol. 10, p. 2022, 2026. + doi:10.22331/q-2026-03-10-2022, + arXiv:2504.06475 +
    2. +
  2. + N. Halko, P.-G. Martinsson, and J. A. Tropp, + "Finding structure with randomness: Probabilistic algorithms for + constructing approximate matrix decompositions," + SIAM Review, vol. 53, no. 2, pp. 217–288, 2011. + doi:10.1137/090771806 +
    3. +
  3. + J. Gray, + "quimb: A python package for quantum information and many-body + calculations," + Journal of Open Source Software, vol. 3, no. 29, p. 819, 2018. + doi:10.21105/joss.00819 +
    4. +
diff --git a/docs/developer-guide/dependencies.md b/docs/developer-guide/dependencies.md deleted file mode 100644 index e768963..0000000 --- a/docs/developer-guide/dependencies.md +++ /dev/null @@ -1,35 +0,0 @@ -# Managing dependencies - -The dependencies are organized in a hierarchy: - -- system dependencies. If any, these are satisfied through the system package manager. -- run dependencies, _e.g._ those specified in the `dependencies` array in - `pyproject.toml` and which are required to run aurora in production. These - can be satisfied through [uv]. -- development dependencies, _e.g._ those specified in the - `[dependency-groups]` table in `pyproject.toml`. These are **not** - needed in production and can be satisfied through [uv]. -- extra dependencies, _e.g._ those specified in the - `[project.optional-dependencies]` table in `pyproject.toml` and that are - required in production to enable optional features. These can also be satisfied - with [uv]. - -## Why uv? - -There are many command-line tools to interact with public and private Python package indexes. -[uv] is one of the newest around and it's a legitimate question to ask **why not -use simply [pip]?** - -- [uv] has a lockfile format which is compact and multi-platform. -- [uv] allows granular control over _which index_ to use to gather _which - dependency_ from. This is important when interacting with private indexes. -- [uv] is very fast. - -## How do I handle dependencies? - -What you would need to do is: - -* Modify the `pyproject.toml` as needed. -* Run `uv sync` to re-install `src_method` with the modified dependency list and regenerate the lockfile. - -[uv]: https://docs.astral.sh/uv/ diff --git a/docs/developer-guide/sonarcloud.md b/docs/developer-guide/sonarcloud.md deleted file mode 100644 index 893b842..0000000 --- a/docs/developer-guide/sonarcloud.md +++ /dev/null @@ -1,31 +0,0 @@ -# Setting up SonarCloud - -Adding SonarCloud analysis for `src_method` is done in two steps. - -First, ask a software engineer to enable the SonarCloud app for you repository. -This is done through Algorithmiq’s Github organization settings: - -- Go to [Algorithmiq’s Github organization settings](https://github.com/organizations/Algorithmiq/settings/profile) -- Click on "GitHub Apps" on the left-hand vertical bar -- Click "Configure" for Sonarcloud -- In the "Repository Access" menu, add your repo `src_method` to the list, to make it visible to the app. -- Click "Save" - -Then, on the Sonarcloud dashboard: - -- Go to the [Algorithmiq organization](https://sonarcloud.io/organizations/algorithmiq/projects) -- Click on the **+** on the top right corner and choose **Analyze new project** -- Add the `src_method` repo from the list - -!!! warning - We use Sonarcloud through the CI: the analysis method (accessible from **Administration > Analysis method**) must **not** be set to Automatic Analysis. - -Finally, you need to set the `SONAR_TOKEN` for your repository: - -- Copy the token from [here](https://sonarcloud.io/project/configuration/GitHubActions?id=Algorithmiq_src_method) -- Go to [the **Secrets and variables** menu for actions](https://github.com/Algorithmiq/src-method/settings/secrets/actions) -- Click on **New repository secret** -- Type `SONAR_TOKEN` as name and paste the value you copied from the SonarCloud settings. -- Repeat the same steps in [the **Secrets and variables** menu for Dependabot](https://github.com/Algorithmiq/src-method/settings/secrets/dependabot) - -Now the repo is added and reports can be seen from the Sonarcloud dashboard and automatically generated with the Github action. diff --git a/docs/developer-guide/testing.md b/docs/developer-guide/testing.md deleted file mode 100644 index 29ee286..0000000 --- a/docs/developer-guide/testing.md +++ /dev/null @@ -1,305 +0,0 @@ -# Writing Tests - -Unit tests are an important part of writing software. Their usefulness comes in many ways: - -* it allows you to make quick verification of the changes applied -* it makes sure that the code you are using is correct -* it speeds up refactoring and optimization of the code - -Therefore it is important to have many tests, which helps identifying potential issues. -​ -Below we present some technical aspects of testing. The list is by no means -complete and if you're interested, please check the [pytest documentation]. - -## General rules - -There are several simple rules that should be followed in order for unit testing to serve its purpose: - -1. Unit tests should test single functionality in a meaningful way, -2. All public methods should have their own tests, -3. All lines should be tested by at least one test ([code coverage]), and -4. Tests should be as fast as possible (yet meaningful) - -The last point is particularly important as all tests are performed on the -continuous integration (CI) service, on which we have large, yet limited number -of computational resources available. - -Furthermore, having too many slow tests prohibits effective refactoring and -optimization. -On the other hand, speed is not the main factor: if you see that increasing time -is essential for making good tests, feel free to write such a test (but mark it -as slow as explained below). -In any case, a single test should not take more than a few seconds. Ideally one -test case should run in a fraction of a second. - -## Technical aspects - -### Naming convention -​ -All tests should be placed in the `tests` folder. `pytest` test discovery analyzes the -whole repository looking for Python scripts whose names are of -the form `test_.py`. - -???+ warning - - You should always run the test scripts as: - - ```python - pytest test_.py - ``` - and _never_ as: - - ```python - python test_.py - ``` - Running in "isolation" will, in many cases, _not work_ as you'd expect. -​ -All test functions within the files should have names following the pattern -`test_`. Optionally, tests can be grouped inside classes whose name -follows the pattern `Test`. -​ -### Simple tests -​ -Within a test function, checks are performed using the `assert` statement: -​ -```python -def test_addition(): - assert 2*2 == 4 -``` - -The test passes if no error occurred when it was run _and_ all assertions are -satisfied. -​ -If error was the expected behavior, you can use `pytest.raises`: -​ -```python -import pytest -​ -def test_value(): - with pytest.raises(ValueError, match=r'must be \d+$'): - raise ValueError("value must be 42") -``` - -The first argument to `pytest.raises` is the exception type. While it can be -omitted, it is bad practice to do so,[^1] as the test will pass for _any_ other -exception that might be raised by the code you are trying to test. - -The second argument, `match`, is useful to further _narrow down_ the exception -we are trying to test. You should pass is a string or a regular expression -(like in the example) to match against the error message reported by the -exception. When trying to test raised standard library exceptions (like -`ValueError` or `TypeError`) it is good practice to also use the `match` -argument to `pytest.raises`. - -### The `pytest` command line -​ -You can alter the default behavior of the `pytest` invocation with command line -arguments. Some useful options: - -1. `-x` run `pytest` until first error encountered -2. `-m "not slow"` only run tests not marked as slow. -3. `-m "slow"` only run tests marked as slow. -3. `--reruns=[m]` rerun failed tests at most `m` times (useful if there are flaky tests) -4. `--durations=[m]` show `m` slowest test durations -5. `--durations-min=[m]` minimal duration in seconds for inclusion in slowest list, defaults to 0.005 -6. `-v` run in verbose mode. You can add multiple `v`s to increase the verbosity further -7. `-s` to not capture stdout. Useful if you are using `print` for debugging - -### Marking tests -​ -We may organize tests in our test suite more effectively -by adding _marks_ to them. -Below we present a list of marks which may be particularly useful. All the marks -should be placed right before the method. - -1. `@pytest.mark.slow`: indicates that the test function will take a long time -to execute. -1. `@pytest.mark.skip("[Message]")`: skip the test. In place of `[Message]` you -should write the reason why the test is skipped. Please use this mark **only if -absolutely necessary**. -1. `@pytest.mark.parametrize("[varname]", [val1, val2, ...])`: parametrize the -test over different values of the arguments to the test function. See a simple -example below. -​ -```python -import pytest -​ -@pytest.mark.parametrize( - ("test_input", "expected"), - [ - ("3+5", 8), - ("2+4", 6), - ("6*9", 42), - ], -) -def test_eval(test_input, expected): - assert eval(test_input) == expected -``` - -### Collecting test cases with `pytest-cases` - -Test parametrization is a powerful technique to avoid code repetition when -writing tests. However, it can be hard to understand _exactly_ what and how -it's being parameterized. `pytest-cases` (see [documentation]) allows to collect the different -parametrizations into case functions/classes, which can the subsequently be -(re-)used in a parameterization. This leads to tidier test scripts. - -See this example from the `pytest-cases` documentation: - -```python -from pytest_cases import parametrize_with_cases, case - -class Foo: - @case(tags=["one"], id="1") - def case_a_positive_int(self): - return 1 - - @case(tags=["two"], id="2") - def case_another_positive_int(self): - return 2 - -@parametrize_with_cases("a", cases=Foo) -def test_foo(a): - assert a > 0 -``` - -In the parameterization, test cases can be filtered using tags or by globbing -function names. - -???+ info - - By default, `pytest-cases` only considers function names following the pattern - `case_` to be valid test cases. - -### Reusable testing functionality - -#### Reusing data with test fixtures - -Often times you find yourself writing tests that use _the same_ input data to -perform their checks. In order to reduce code duplication, the standard approach -is to use test [fixtures]. -It is very easy to create fixtures with `pytest`: - -```python -import pytest - - -@pytest.fixture -def first_entry(): - return "a" -``` - -and using them is a matter of adding an input argument to your test function: - -```python -def test_string(first_entry): - # Assert - assert first_entry == "a" -``` - -Fixtures can be defined in the same file as the test or placed in `conftest.py` -files in the _same_ or _any parent_ folder of the test file. -`conftest.py` files are special files for `pytest`: they are "evaluated" during -test collection, such that any globally defined data is available to the test -functions when they are executed.[^2] - -Fixtures can be used as arguments to other fixtures. Also, they can be _scoped_, -to decide _when_ the fixture should be executed. -By default, each fixture is function-scoped and is executed _before_ every test -function that needs it. -However, it's better to execute expensive fixtures fewer times and cache their -result. -This is achieved using the `scope` keyword argument to the the `pytest.fixture` -decorator. The available scopes are [documented here]. - -#### Reusing functions with `pytest-helpers-namespace` - -Other times what you want to reuse is not some _data_ produced by a function, but the function itself. -A typical use case is as follows: - -* You're creating a parameterized test. -* The value of the parameter is computed through other parameters. - -`pytest` offers functionality for this in terms of [parameterized fixtures](https://docs.pytest.org/en/stable/how-to/fixtures.html#parametrizing-fixtures) -and [indirect parameterization](https://docs.pytest.org/en/stable/example/parametrize.html#indirect-parametrization), however: - -* The former requires one central place (the fixture definition) where to list -all possible combinations of valid parameters. When running the test using the -parameterized fixture, _all parameter combinations_ will be executed. Excluding -cases to run is cumbersome. -* The latter results in a rather unintuitive way of preparing data for a test. -Especially for those use cases where _multiple arguments_ are needed to -prepare the data for the test. - -While parameterized fixture and indirect parameterization are very useful, -`pytest-helpers-namespace` offers a [lightweight alternative]. -One can define _functions_ in any of the `conftest.py` files -and decorate them appropriately: - -```python -import pytest - - -@pytest.helpers.register -def foo(bar): - return bar -``` - -such that they can be reused in the test files, without having to import -`conftest.py` first: - -```python -def test_helper_namespace(): - assert pytest.helpers.foo(True) is True -``` - -### How to use logging with tests - -Within `aurora`, we adopt a `pytest` configuration that allows to see the output -from the logger when executing tests: - -```toml -[tool.pytest.ini_options] -log_cli = true -log_cli_format = "%(asctime)s %(levelname)s %(message)s" -log_date_format = "%Y-%m-%d %H:%M:%S" -``` - -The default logging level is `logging.WARNING`. - -When writing your tests, you might find useful to obtain output to screen to -check what is going on with the code you are trying to test. Traditionally, one -would reach for the `print` function, but we explicitly discourage such uses and -favour the use of logging instead. -Also, while we don't require it, you might want to test the log messages emitted -by your code, which would require _capturing_ the output from the logger within -the test function. - -The `caplog` [fixture] from `pytest` comes to the rescue in both cases. -The following example shows how to set the log level for the -`aurora.chemistry.eos` submodule to `logging.INFO`: - -```python -def test_foo(caplog): - caplog.set_level(logging.INFO, logger="aurora.chemistry.eos") -``` - -Running the test on the command line will show logging output from the submodule. -The fixture has attributes `records` and `record_tuples`, which store the data -sent to the logger. These can be used if you want to check that specific log -messages have been emitted by your code. - - -[pytest documentation]: https://docs.pytest.org -[code coverage]: https://en.wikipedia.org/wiki/Code_coverage -[documentation]: https://smarie.github.io/python-pytest-cases/ -[fixtures]: https://docs.pytest.org/en/stable/explanation/fixtures.html# -[^1]: luckily, Ruff will flag this bad practice. -[^2]: this is why you should _never_ think of the test scripts as usual Python scripts! Details of how `conftest.py` works can be found [here](https://docs.pytest.org/en/stable/reference/fixtures.html#conftest-py-sharing-fixtures-across-multiple-files). As a corollary to this, never add the boilerplate: -```python -if __name__ == "__main__": -``` -to the bottom of the test file. You can execute any test through `pytest` by simply _selecting_ it with the `-k` flag. -[documented here]: https://docs.pytest.org/en/stable/how-to/fixtures.html#fixture-scopes -[lightweight alternative]: https://pytest-helpers-namespace.readthedocs.io/en/latest/ -[fixture]: https://docs.pytest.org/en/stable/how-to/logging.html diff --git a/docs/developer-guide/versioning.md b/docs/developer-guide/versioning.md deleted file mode 100644 index e2ae1ed..0000000 --- a/docs/developer-guide/versioning.md +++ /dev/null @@ -1,23 +0,0 @@ -# Versioning scheme - -Aurora follows [semantic versioning] and [PEP440] for its version numbers. -We use [setuptools-scm] to compute unambiguous version numbers for any revision -on any branch, either pushed or in local development. -We adopt the default -[convention](https://setuptools-scm.readthedocs.io/en/latest/usage/#default-versioning-scheme) in [setuptools-scm]. - -The version number can be obtained as `aurora.__version__` and it will look -something like `0.2.1.dev1151+g51faf286.d20231003`: - -* The first part `X.Y.Z` is the _current latest tag_ with the rightmost version - number augmented by 1. Thus, `0.2.1` is the _next_ tag that we are working - towards, starting from the currently released tag `0.2.0`. -* The second part `.devN` is the _number of commits since the latest tag_, in - this case 1151 commits. -* The third part `+gXXXXXXXX` is the _current commit short hash_. -* The fourth part `.dYYYYMMDD` is only added in local development, when there - are uncommitted changes in the tree (dirty state). - -[semantic versioning]: https://semver.org/ -[PEP440]: https://peps.python.org/pep-0440/ -[setuptools-scm]: https://setuptools-scm.readthedocs.io diff --git a/docs/gen_ref_pages.py b/docs/gen_ref_pages.py deleted file mode 100644 index b79ff23..0000000 --- a/docs/gen_ref_pages.py +++ /dev/null @@ -1,34 +0,0 @@ -# ruff: noqa: INP001 -"""Generate the code reference pages and navigation.""" -from __future__ import annotations - -from pathlib import Path - -import mkdocs_gen_files - -nav = mkdocs_gen_files.Nav() - -for path in sorted(Path("src").rglob("*.py")): - module_path = path.relative_to("src").with_suffix("") - doc_path = path.relative_to("src").with_suffix(".md") - full_doc_path = Path("reference", doc_path) - - parts = tuple(module_path.parts) - - if parts[-1] == "__init__": - parts = parts[:-1] - doc_path = doc_path.with_name("index.md") - full_doc_path = full_doc_path.with_name("index.md") - elif parts[-1] == "__main__": - continue - - nav[parts] = doc_path.as_posix() - - with mkdocs_gen_files.open(full_doc_path, "w") as fd: - ident = ".".join(parts) - fd.write(f"::: {ident}") - - mkdocs_gen_files.set_edit_path(full_doc_path, path) - -with mkdocs_gen_files.open("reference/SUMMARY.md", "w") as nav_file: - nav_file.writelines(nav.build_literate_nav()) diff --git a/docs/index.md b/docs/index.md deleted file mode 100644 index 913f643..0000000 --- a/docs/index.md +++ /dev/null @@ -1,152 +0,0 @@ -# SRC Method - -## Successive Randomized Compression - -An implementation of the SRC algorithm introduced on [arXiv:2504.06475](https://arxiv.org/abs/2504.06475), but extending the idea to other kinds of tensor networks. - -### Features - -The following primitives are supported: - -1. MPO-MPS randomized contraction-compression. -2. MPO-MPO randomized contraction-compression. -3. MPO randomized compression. -4. MPS randomized compression. -5. Randomized contraction-compression of a whole stack of trains in one sweep: - `MPO^k`, `MPO^k . MPS` and `MPS . MPO^k`. - -`src_method` has no tensor-network framework dependency: it takes and returns plain lists of per-site NumPy arrays, one array per site. - -```python -from src_method import apply, compress, src -``` - -The `apply` function covers cases 1 and 2 above, the `compress` function cases 3 and 4, and `src` all five: `apply` and `compress` are its two- and one-train special cases. All three functions are pure, meaning no in-place modification ever happens. The user should -manage the assignment of the returned objects, possibly overwriting the input variables. -See the [reference documentation](algorithmiq.github.io/src_method/) for details, and the [tests](../tests/) or [benchmarks](../benches/) folders for usage examples. - -Whether a train is an MPS or an MPO is inferred from the rank of its first site tensor, so no wrapper type is needed. - -**NOTE**: the current implementation targets tensor networks with 3 or more sites. For smaller networks, an exact SVD-based fallback is dispatched, with a warning. - -### Tensor Indexing Conventions - -The array layout follows the default `quimb` tensor indexing conventions, so results round-trip through [Quimb](https://quimb.readthedocs.io/en/latest/autoapi/quimb/tensor/index.html) without any permutation: - -```python -import quimb.tensor as qtn - -result = qtn.MatrixProductOperator(apply(H1.arrays, H2.arrays, chi_out=64)) -``` - -- **MPO Tensors:** Bulk tensors have index order `('l', 'r', 'u', 'd')`. - Boundary tensors (at the edges) are rank-3, dropping the outer `'l'` or `'r'` index. - -- **MPS Tensors:** Bulk tensors have index order `('l', 'r', 'u')`. - Boundary tensors are rank-2, dropping the outer bond index. - -Where `'l'`/`'r'` are left/right virtual bonds and `'u'`/`'d'` are the upper/lower physical legs. -Please keep this in mind when constructing or manipulating tensors directly. - -### Contraction Conventions - -`src` contracts a *stack* of trains and compresses the result in a single sweep: - -```python -from src_method import src - -state = src(U3, U2, U1, psi, chi_out=64) # U3 U2 U1 |psi>, U1 acts first -``` - -The stack is written in mathematical order. Each contraction joins the `'d'` leg of a train with the `'u'` leg (or the physical leg of an MPS) of the train to its right: - -| Stack | Contraction | Result | -|---|---|---| -| `src(A)`, `src(psi)` | none | compressed MPO or MPS | -| `src(A, B, ...)` | `A.d` with `B.u` | MPO | -| `src(A, ..., psi)` | `A.d` with `psi` | MPS on the `'u'` leg of `A` (a ket) | -| `src(phi, A, ...)` | `phi` with `A.u` | MPS on the `'d'` leg of the last MPO (a bra) | - -An MPS may appear only first or last, and not both. `apply(A, B)` and `compress(A)` are the two- and one-train cases; `apply` accepts only an MPO on the left. - -A leading MPS is a row vector used **without conjugation**: `src(phi, A, B)` computes `phiᵀ A B`, which equals `src(Bᵀ, Aᵀ, phi)` with `ᵀ` swapping the `'u'` and `'d'` legs. For the physical bra `=1.78 -3. The VSCode [DevContainers extension](https://marketplace.visualstudio.com/items?itemName=ms-vscode-remote.remote-containers). -4. (Optional, but **highly recommended**) The [GitHub CLI] tool. - -You can clone the repository with: - -``` -git clone https://github.com/Algorithmiq/src-method.git -``` - -We recommend using a Git credential manager, such as [GitHub CLI], configured to -use HTTPS as protocol for Git operations. - -Once the code is locally available, you can open its containing folder in -[Visual Studio Code]. The editor will then set up the [DevContainer] for you. -The first time you open the folder the startup will take a few minutes. Once the -process is done, you will have _all_ project dependencies installed, including -the git hooks. -[Visual Studio Code] will be already configured with all the extensions helpful for Python development. - -**Note** that the order in which Visual Studio Code loads the extensions in the -DevContainer is non-deterministic. You might have to execute the *Reload -Window* command to get everything to work as expected after a fresh build of the -container. - -[DevContainer]: https://containers.dev/ -[Docker]: https://docs.docker.com/get-docker/ -[Visual Studio Code]: https://code.visualstudio.com/ -[GitHub CLI]: https://cli.github.com/ -[at this link]: https://docs.algorithmiq.fi/src_method - -### Logging - -`src_method` logs through the standard library `logging` module, under the -`src_method` logger, and stays silent by default: it adds only a `NullHandler` -and never touches the root logger or its handlers. Progress and timing messages -are emitted at `DEBUG`, the small-network fallback at `WARNING`. To see them, -configure logging in your application: - -```python -import logging - -logging.basicConfig(level=logging.INFO) -logging.getLogger("src_method").setLevel(logging.DEBUG) -``` diff --git a/docs/javascripts/config.js b/docs/javascripts/config.js deleted file mode 100644 index fd764a7..0000000 --- a/docs/javascripts/config.js +++ /dev/null @@ -1,16 +0,0 @@ -window.MathJax = { - tex: { - inlineMath: [["\\(", "\\)"]], - displayMath: [["\\[", "\\]"]], - processEscapes: true, - processEnvironments: true - }, - options: { - ignoreHtmlClass: ".*|", - processHtmlClass: "arithmatex" - } -}; - -document$.subscribe(() => { - MathJax.typesetPromise() -}) diff --git a/docs/next.config.mjs b/docs/next.config.mjs new file mode 100644 index 0000000..8996efa --- /dev/null +++ b/docs/next.config.mjs @@ -0,0 +1,17 @@ +import { createMDX } from 'fumadocs-mdx/next'; + +const withMDX = createMDX(); + +/** @type {import('next').NextConfig} */ +const config = { + output: 'export', + // GitHub Pages serves `dir/index.html` for `/dir/` reliably, unlike `dir.html` + // next to a `dir/` folder of the same name. + trailingSlash: true, + // Empty for `npm run dev`; the Pages build sets it to the repository subpath. + basePath: process.env.NEXT_PUBLIC_BASE_PATH ?? '', + reactStrictMode: true, + images: { unoptimized: true }, +}; + +export default withMDX(config); diff --git a/docs/notebooks/accuracy_vs_bond_dimension/accuracy_vs_bond_dimension.ipynb b/docs/notebooks/accuracy_vs_bond_dimension/accuracy_vs_bond_dimension.ipynb new file mode 100644 index 0000000..ebc8a3c --- /dev/null +++ b/docs/notebooks/accuracy_vs_bond_dimension/accuracy_vs_bond_dimension.ipynb @@ -0,0 +1,131 @@ +{ + "cells": [ + { + "cell_type": "markdown", + "id": "9649f8fd", + "metadata": {}, + "source": [ + "# Accuracy versus bond dimension\n", + "\n", + "This tutorial applies a random MPO to a random MPS with `apply` and measures how\n", + "the error of the compressed product falls as the output bond dimension `chi_out`\n", + "grows. As a yardstick it uses `quimb`'s contract-then-truncate, which computes\n", + "the exact product and truncates it with SVDs: close to the best a train of that\n", + "bond dimension can do." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "be003627", + "metadata": {}, + "outputs": [], + "source": [ + "import matplotlib.pyplot as plt\n", + "import numpy as np\n", + "import quimb.tensor as qtn\n", + "\n", + "from src_method import apply" + ] + }, + { + "cell_type": "markdown", + "id": "6231ca09", + "metadata": {}, + "source": [ + "## The problem\n", + "\n", + "A 16-site MPO with bond dimension 4 applied to an MPS with bond dimension 16: the\n", + "exact product has bond dimension 64, which is still small enough to form and\n", + "use as the reference." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "f2f6cbb9", + "metadata": {}, + "outputs": [], + "source": [ + "n_sites = 16\n", + "H = qtn.MPO_rand(n_sites, bond_dim=4, phys_dim=2, seed=0)\n", + "psi = qtn.MPS_rand_state(n_sites, bond_dim=16, phys_dim=2, seed=1)\n", + "\n", + "exact = H.apply(psi, compress=False)\n", + "norm = exact.norm()\n", + "print(f\"exact bond dimension: {exact.max_bond()}\")" + ] + }, + { + "cell_type": "markdown", + "id": "00360359", + "metadata": {}, + "source": [ + "## Sweeping `chi_out`\n", + "\n", + "`apply` takes and returns plain lists of site arrays, so `.arrays` unwraps the\n", + "`quimb` networks and `qtn.MatrixProductState` wraps the result back up. A fixed\n", + "`seed` keeps the random sketches, and the figure, reproducible." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "6ecb9224", + "metadata": {}, + "outputs": [], + "source": [ + "chis = [4, 8, 12, 16, 24, 32, 48, 64]\n", + "src_errors, svd_errors = [], []\n", + "for chi in chis:\n", + " phi = qtn.MatrixProductState(apply(H.arrays, psi.arrays, chi_out=chi, seed=2))\n", + " src_errors.append(phi.distance(exact) / norm)\n", + "\n", + " truncated = exact.copy()\n", + " truncated.compress(max_bond=chi)\n", + " svd_errors.append(truncated.distance(exact) / norm)\n", + "\n", + "for chi, e_src, e_svd in zip(chis, src_errors, svd_errors):\n", + " print(f\"chi_out={chi:3d} SRC {e_src:.2e} SVD {e_svd:.2e}\")" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "5f171ea7", + "metadata": {}, + "outputs": [], + "source": [ + "fig, ax = plt.subplots(figsize=(6, 4))\n", + "ax.semilogy(chis, np.maximum(src_errors, 1e-16), \"o-\", label=\"SRC (apply)\")\n", + "ax.semilogy(chis, np.maximum(svd_errors, 1e-16), \"s--\", label=\"exact + SVD truncation\")\n", + "ax.set_xlabel(\"chi_out\")\n", + "ax.set_ylabel(\"relative error\")\n", + "ax.legend()\n", + "fig.tight_layout()" + ] + }, + { + "cell_type": "markdown", + "id": "dcd6b6ff", + "metadata": {}, + "source": [ + "Both curves fall together and reach rounding error once `chi_out` matches the\n", + "exact bond dimension of 64. SRC sits somewhat above the SVD truncation: it never\n", + "forms the exact product, and its randomized sketch is not optimal. In exchange,\n", + "its cost grows with `chi_out**2` times the input bond dimensions instead of with\n", + "the cube of the exact bond dimension, which is what makes it pay off once the\n", + "exact product no longer fits." + ] + } + ], + "metadata": { + "kernelspec": { + "display_name": "Python 3", + "language": "python", + "name": "python3" + } + }, + "nbformat": 4, + "nbformat_minor": 5 +} diff --git a/docs/package-lock.json b/docs/package-lock.json new file mode 100644 index 0000000..8850ef3 --- /dev/null +++ b/docs/package-lock.json @@ -0,0 +1,7340 @@ +{ + "name": "docs", + "version": "0.0.0", + "lockfileVersion": 3, + "requires": true, + "packages": { + "": { + "name": "docs", + "version": "0.0.0", + "hasInstallScript": true, + "dependencies": { + "cnfast": "^0.2.0", + "fumadocs-core": "16.15.17", + "fumadocs-mdx": "15.4.5", + "fumadocs-ui": "16.15.17", + "katex": "^0.18.9", + "lucide-react": "^1.49.0", + "next": "16.3.7", + "react": "^19.3.0", + "react-dom": "^19.3.0", + 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"fumadocs-mdx && next typegen && tsc --noEmit", + "postinstall": "fumadocs-mdx" + }, + "dependencies": { + "cnfast": "^0.2.0", + "fumadocs-core": "16.15.17", + "fumadocs-mdx": "15.4.5", + "fumadocs-ui": "16.15.17", + "katex": "^0.18.9", + "lucide-react": "^1.49.0", + "next": "16.3.7", + "react": "^19.3.0", + "react-dom": "^19.3.0", + "rehype-citation": "^2.3.2", + "rehype-katex": "^7.0.1", + "rehype-raw": "^7.0.0", + "remark-math": "^6.0.0" + }, + "devDependencies": { + "@tailwindcss/postcss": "^4.3.3", + "@types/mdx": "^2.0.14", + "@types/node": "^26.6.3", + "@types/react": "^19.3.0", + "@types/react-dom": "^19.3.0", + "postcss": "^8.5.28", + "tailwindcss": "^4.3.3", + "typescript": "^7.0.2", + "yaml": "^2.9.1" + } +} diff --git a/docs/postcss.config.mjs b/docs/postcss.config.mjs new file mode 100644 index 0000000..297374d --- /dev/null +++ b/docs/postcss.config.mjs @@ -0,0 +1,7 @@ +const config = { + plugins: { + '@tailwindcss/postcss': {}, + }, +}; + +export default config; diff --git a/docs/public/fonts/gt-planar/GT-Planar-Light.woff2 b/docs/public/fonts/gt-planar/GT-Planar-Light.woff2 new file mode 100644 index 0000000..9ada004 Binary files /dev/null and b/docs/public/fonts/gt-planar/GT-Planar-Light.woff2 differ diff --git a/docs/public/fonts/gt-planar/GT-Planar-Regular.woff2 b/docs/public/fonts/gt-planar/GT-Planar-Regular.woff2 new file mode 100644 index 0000000..29ad899 Binary files /dev/null and b/docs/public/fonts/gt-planar/GT-Planar-Regular.woff2 differ diff --git a/docs/public/fonts/gt-planar/GT-Planar-Thin.woff2 b/docs/public/fonts/gt-planar/GT-Planar-Thin.woff2 new file mode 100644 index 0000000..d910c37 Binary files /dev/null and b/docs/public/fonts/gt-planar/GT-Planar-Thin.woff2 differ diff --git a/docs/scripts/api-mdx.mjs b/docs/scripts/api-mdx.mjs new file mode 100644 index 0000000..9a474e8 --- /dev/null +++ b/docs/scripts/api-mdx.mjs @@ -0,0 +1,254 @@ +// Render the griffe API dump (`gen_api_dump.py`) to Fumadocs MDX. +// +// Derived from the Node half of fumadocs-python (MIT, (c) 2023 Fuma); see +// `gen_api_dump.py` for the full notice. Kept deliberately close to that +// original so the emitted MDX -- and therefore the `/api/...` URL scheme the +// cross-reference index in `xref.mjs` mirrors -- stays unchanged. +// +// Page granularity is the contract: one page per module (`/index.mdx`) +// and one per class (`/.mdx`), with functions and attributes +// rendered inline on their parent's page and addressed by a `#` fragment. +// `xref.mjs` encodes the same rule, so the two must move together. + +import * as fs from 'node:fs/promises'; +import * as path from 'node:path'; +import { stringify } from 'yaml'; + +/** + * Render a module tree to a flat list of `{path, frontmatter, content}` files. + * + * `path` stays package-qualified (`src_method/stack/index.mdx`) -- callers key + * off that leading segment to derive a page's scope and source file -- while + * `write` strips it on the way to disk, matching the hrefs `getHref` mints. + */ +export function convert(mod, options = {}) { + const files = []; + const content = []; + const tabs = []; + const tabContents = []; + + if (mod.description) content.push(encodeText(mod.description)); + const remainder = convertDoc(mod.docstring ?? []); + if (remainder) content.push(remainder); + for (const attr of mod.attributes) content.push(convertAttribute(attr)); + + if (Object.keys(mod.classes).length > 0) { + tabs.push('Class'); + const lines = []; + for (const cls of Object.values(mod.classes)) { + files.push(...convertClass(cls)); + lines.push(element('Card', { title: cls.name, href: getHref(cls, options) })); + } + tabContents.push(element('Cards', undefined, lines.join('\n'))); + } + + if (Object.keys(mod.functions).length > 0) { + tabs.push('Functions'); + const lines = []; + for (const func of Object.values(mod.functions)) lines.push(convertFunction(func)); + tabContents.push(lines.join('\n')); + } + + if (Object.keys(mod.modules).length > 0) { + tabs.push('Modules'); + const lines = []; + for (const submod of Object.values(mod.modules)) { + files.push(...convert(submod, options)); + lines.push(element('Card', { href: getHref(submod, options), title: submod.name })); + } + tabContents.push(element('Cards', undefined, lines.join('\n'))); + } + + if (tabs.length > 0) { + content.push( + element( + 'Tabs', + { items: tabs }, + tabContents.map((tab, i) => element('Tab', { value: tabs[i] }, tab)).join('\n'), + ), + ); + } + + files.push({ + path: [...mod.path.split('.'), 'index.mdx'].join('/'), + frontmatter: { title: mod.name }, + content: content.join('\n\n'), + }); + return files; +} + +function convertClass(cls) { + const content = []; + + if (cls.description) content.push(encodeText(cls.description)); + const remainder = convertDoc(cls.docstring ?? []); + if (remainder) content.push(remainder); + if (cls.attributes.length > 0) content.push(heading(2, 'Attributes')); + for (const attr of cls.attributes) content.push(convertAttribute(attr)); + if (Object.keys(cls.functions).length > 0) { + content.push(heading(2, 'Functions')); + for (const func of Object.values(cls.functions)) content.push(convertFunction(func)); + } + + return [ + { + path: cls.path.replaceAll('.', '/') + '.mdx', + frontmatter: { title: cls.name }, + content: content.join('\n\n'), + }, + ]; +} + +function convertFunction(func) { + return element( + 'PyFunction', + { name: func.name, type: func.signature }, + [ + func.description ? encodeText(func.description) : null, + convertDoc(func.docstring ?? []), + func.source.length > 0 + ? element('PySourceCode', undefined, codeblock('python', func.source)) + : null, + func.parameters.length > 0 + ? element('div', undefined, func.parameters.map(convertParameter).join('\n')) + : null, + element( + 'PyFunctionReturn', + { type: func.returns.annotation }, + [func.returns.description ? encodeText(func.returns.description) : null] + .filter(Boolean) + .join('\n'), + ), + ] + .filter(Boolean) + .join('\n\n'), + ); +} + +function convertParameter(param) { + const lines = []; + if (param.description) { + lines.push( + typeof param.description === 'string' ? param.description : convertDoc(param.description), + ); + } + return element( + 'PyParameter', + { name: param.name, type: param.annotation, value: param.value }, + lines.join('\n'), + ); +} + +function convertAttribute(attribute) { + return element( + 'PyAttribute', + { name: attribute.name, type: attribute.annotation, value: attribute.value }, + [attribute.description ? convertDoc(attribute.description) : null].filter(Boolean).join('\n'), + ); +} + +/** + * Render the docstring sections `simplify_docstring` left in `remainder`. + * + * Anything not handled here is dropped, which is why the default warns: which + * sections griffe splits out is a function of its version, so a docstring can + * stop rendering without anything else changing. + */ +function convertDoc(docstring) { + const lines = []; + for (const item of docstring) { + if (item.kind === 'text') { + lines.push(encodeText(item.value)); + } else if (item.kind === 'admonition') { + lines.push( + element( + 'Callout', + { title: item.title, type: item.value.annotation }, + encodeText(item.value.description), + ), + ); + } else if (item.kind === 'raises') { + lines.push( + ['**Raises**', '', ...item.value.map((exc) => `- \`${exc.annotation}\`: ${encodeText(foldLines(exc.description))}`)].join('\n'), + ); + } else { + console.warn(`api-mdx: dropping unhandled docstring section "${item.kind}"`); + } + } + return lines.join('\n\n'); +} + +// A list item has to stay on one line, but docstring descriptions wrap. +function foldLines(text) { + return String(text).replace(/\s*\n\s*/g, ' ').trim(); +} + +function heading(depth, content) { + return ['#'.repeat(depth), content].join(' '); +} + +function codeblock(meta, code) { + const delimit = '```'; + return `${delimit}${meta}\n${code.replaceAll(delimit, '\\```')}\n${delimit}`; +} + +/** Emit an MDX element, passing every prop as an expression (`name={"x"}`). */ +function element(name, props = {}, children) { + const propsStr = []; + for (const key in props) propsStr.push(`${key}={${JSON.stringify(props[key])}}`); + if (children) { + return `<${name} ${propsStr.join(' ')}>\n\n${children}\n\n`; + } + return `<${name} ${propsStr.join(' ')} />`; +} + +// Mints the URL of the page documenting `ele`, dropping the package's own +// leading segment so it lines up with where `write` puts the file. `pageUrl` in +// `xref.mjs` has to agree with this, since prose links are resolved from there. +function getHref(ele, options) { + const { baseUrl = '/' } = options; + return ( + '/' + + [...baseUrl.split('/'), ...ele.path.split('.').slice(1)].filter((v) => v.length > 0).join('/') + ); +} + +// MDX parses `<` as JSX and `{` as an expression, so docstring prose has to +// escape both -- but not inside code spans, where MDX takes them literally and +// an escape would show up as a stray backslash. +function encodeText(v) { + return v + .split(/(`+[^`]*?`+)/) + .map((part, i) => + i % 2 === 1 + ? part + : part.replaceAll('<', '\\<').replaceAll('{', '\\{').replaceAll('}', '\\}'), + ) + .join(''); +} + +/** + * Write the rendered files under `outDir`, dropping the leading path segment + * (the package name) so `src_method/stack/...` lands at `/stack/...`. + */ +export async function write(output, options = {}) { + await Promise.all( + output.map(async (file) => { + const filePath = path.resolve( + options.outDir ?? './', + file.path.split('/').slice(1).join('/'), + ); + await fs.mkdir(path.dirname(filePath), { recursive: true }); + await fs.writeFile( + filePath, + Object.keys(file.frontmatter).length > 0 + ? `${frontmatter(file.frontmatter)}\n\n${file.content}` + : file.content, + ); + }), + ); +} + +function frontmatter(obj) { + return `---\n${stringify(obj, { compat: 'yaml-1.1', singleQuote: true }).trim()}\n---`; +} diff --git a/docs/scripts/gen_api_dump.py b/docs/scripts/gen_api_dump.py new file mode 100755 index 0000000..9a3409b --- /dev/null +++ b/docs/scripts/gen_api_dump.py @@ -0,0 +1,597 @@ +#!/usr/bin/env python3 +# Copyright 2026 Algorithmiq +# +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at +# +# http://www.apache.org/licenses/LICENSE-2.0 +# +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. +# +# --------------------------------------------------------------------------- +# Portions of this file are derived from `fumapy`, the Python half of the +# fumadocs-python package (https://github.com/fuma-nama/fumadocs): +# +# MIT License. Copyright (c) 2023 Fuma +# +# Permission is hereby granted, free of charge, to any person obtaining a +# copy of this software and associated documentation files (the "Software"), +# to deal in the Software without restriction, including without limitation +# the rights to use, copy, modify, merge, publish, distribute, sublicense, +# and/or sell copies of the Software, and to permit persons to whom the +# Software is furnished to do so, subject to the following conditions: +# +# The above copyright notice and this permission notice shall be included in +# all copies or substantial portions of the Software. +# +# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR +# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, +# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE +# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER +# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING +# FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER +# DEALINGS IN THE SOFTWARE. +# --------------------------------------------------------------------------- +"""Dump a Python package's documented API surface to JSON, via griffe. + +The JSON is the input to two consumers, which is why its schema is a contract +rather than an implementation detail: + +- `scripts/generate-api.mjs`, which renders it to the MDX under + `content/docs/api/`, and +- `scripts/remark-xref.mjs`, which builds the `[Symbol][]` cross-reference index + for prose pages and docstrings from it. + +Run it from `docs/` (see `docs/README.md`); the package has to be importable. +""" + +from __future__ import annotations + +import argparse +import json +import typing as t +from importlib.metadata import version +from pathlib import Path + +import griffe + +# --------------------------------------------------------------------------- +# The JSON schema +# +# These describe the *serialised* shape, which is what the two JS consumers +# read. In flight, the same fields hold griffe model objects (a +# `DocstringParameter` where a `Parameter` is declared, an `Expr` where a `str` +# is); `Encoder` flattens them at dump time. The `t.cast` calls in the `parse_*` +# functions are where that gap is crossed deliberately. +# --------------------------------------------------------------------------- + + +class Module(t.TypedDict): + """A documented module or package.""" + + name: str + path: str + filepath: str + description: str | None + docstring: Docstring + attributes: list[Attribute] + modules: dict[str, Module] + classes: dict[str, Class] + functions: dict[str, Function] + version: str | None + + +class Class(t.TypedDict): + """A documented class.""" + + name: str + path: str + description: str | None + parameters: list[Parameter] + attributes: list[Attribute] + docstring: Docstring + functions: dict[str, Function] + source: str + inherited_members: dict[str, list[dict[str, str]]] + + +class Function(t.TypedDict): + """A documented function or method.""" + + name: str + path: str + signature: str + description: str | None + parameters: list[Parameter] + returns: dict[str, str | None] + docstring: Docstring + source: str + + +class DocstringSection(t.TypedDict): + """A docstring section that `simplify_docstring` did not consume.""" + + kind: str + value: str | list[Parameter] + + +Docstring = list[DocstringSection] + + +class Parameter(t.TypedDict): + """A signature parameter, merged with its docstring entry if it has one.""" + + name: str + annotation: str + description: str + value: str + + +class Attribute(t.TypedDict): + """A module- or class-level attribute.""" + + name: str + annotation: str + description: str + value: str + + +# --------------------------------------------------------------------------- +# Docstring simplification +# --------------------------------------------------------------------------- + + +class SimplifiedDocstring(t.NamedTuple): + """A docstring split into the parts the renderer treats specially. + + Entries are either plain dicts built from the signature or the griffe + docstring elements they were parsed from; `Encoder` serialises both, so the + two are interchangeable downstream. A field is `None` when the parent cannot + have it at all (a module has no parameters), as opposed to an empty list for + a parent that has none. + """ + + description: str | None + parameters: list[object] | None + returns: object | None + attributes: list[object] | None + remainder: list[griffe.DocstringSection] + + +_VARIADIC = (griffe.ParameterKind.var_positional, griffe.ParameterKind.var_keyword) + + +def _parameters_from_signature( + parent: griffe.Class | griffe.Function, +) -> list[object]: + return [ + { + "name": p.name, + "annotation": p.annotation, + "description": None, + "value": None if p.kind in _VARIADIC else p.default, + } + for p in parent.parameters + ] + + +def _returns_from_signature(parent: griffe.Function) -> object: + return { + "name": "", + "annotation": ( + parent.returns + if isinstance(parent.returns, (str, type(None))) + else "".join( + elem if isinstance(elem, str) else elem.canonical_path + for elem in parent.returns.iterate(flat=True) + ) + ), + "description": None, + } + + +def _attributes_from_signature( + parent: griffe.Module | griffe.Class, +) -> list[object]: + return [ + { + "name": attr.name, + "annotation": attr.annotation, + "description": attr.docstring.parsed if attr.docstring else None, + "value": attr.value, + } + for attr in parent.attributes.values() + if (not attr.is_alias and not attr.is_private) + ] + + +def _parse_nested(description: str) -> object: + """Re-parse a docstring entry's description as a Google-style docstring. + + Parameter and attribute descriptions can themselves carry sections; the + renderer expects the parsed form. A description that is already parsed is + returned unchanged -- `AttributeError` is how that shows up. + """ + try: + return griffe.parse_google(griffe.Docstring(description)) + except AttributeError: + return description + + +def _merge_parameters( + documented: list[griffe.DocstringParameter], parent: griffe.Class | griffe.Function +) -> list[object]: + """Order a docstring's parameter entries by the real signature. + + Yields one entry per signature parameter, documented or not, so the renderer + can lay out a full parameter list from a partial docstring. + """ + # Google style documents `*args` as `*args`; the signature names it `args`. + by_name = {entry.name.lstrip("*"): entry for entry in documented} + merged: list[object] = [] + for param in parent.parameters: + entry = by_name.get(param.name) + if entry is not None and param.kind in _VARIADIC: + # griffe reports `()` and `{}` as the defaults of `*args` and + # `**kwargs`, which the renderer would show as `= ()`. + merged.append( + { + "name": param.name, + "annotation": entry.annotation, + "description": _parse_nested(entry.description), + "value": None, + } + ) + elif entry is not None: + # Replaces the raw text with its parsed sections in place, which the + # renderer reads back -- griffe declares `description` as `str`, so + # this widening is deliberate. + entry.description = t.cast("str", _parse_nested(entry.description)) + merged.append(entry) + else: + merged.append( + { + "name": param.name, + "annotation": param.annotation, + "description": None, + "value": None if param.kind in _VARIADIC else param.default, + } + ) + return merged + + +def _merge_attributes( + documented: list[griffe.DocstringAttribute], parent: griffe.Module | griffe.Class +) -> list[object]: + """Order a docstring's attribute entries by the real attributes. + + Yields one entry per non-aliased attribute, documented or not. + """ + by_name = {entry.name: entry for entry in documented} + merged: list[object] = [] + for attr in parent.attributes.values(): + if attr.is_alias: + continue + entry = by_name.get(attr.name) + if entry is not None: + merged.append( + { + "name": entry.name, + "description": _parse_nested(entry.description), + # The declared annotation wins over the inferred one, but + # the value only exists on the real attribute. + "annotation": entry.annotation, + "value": attr.value, + } + ) + else: + merged.append( + { + "name": attr.name, + "annotation": attr.annotation, + "description": (attr.docstring.parsed if attr.docstring else None), + "value": attr.value, + } + ) + return merged + + +def simplify_docstring( + doc: griffe.Docstring | None, + parent: griffe.Module | griffe.Class | griffe.Function | None = None, +) -> SimplifiedDocstring: + """Split a docstring into description, parameters, returns and the rest. + + The `parameters` and `attributes` sections are re-ordered to follow the real + signature, and entries the docstring omits are filled in from it, so the + renderer can lay out every parameter whether or not it is documented. + + Args: + doc: The docstring to simplify; may be `None`. + parent: The object the docstring belongs to, used for the signature. + + Returns: + The docstring's parts, with anything not recognised in `remainder`. + """ + description = None + parameters = ( + _parameters_from_signature(parent) + if isinstance(parent, (griffe.Class, griffe.Function)) + else None + ) + attributes = ( + _attributes_from_signature(parent) + if isinstance(parent, (griffe.Module, griffe.Class)) + else None + ) + returns = ( + _returns_from_signature(parent) if isinstance(parent, griffe.Function) else None + ) + remainder: list[griffe.DocstringSection] = [] + + if not doc: + return SimplifiedDocstring( + description, parameters, returns, attributes, remainder + ) + + for i, sec in enumerate(doc.parsed): + # The leading prose is the summary; later text sections stay in the + # remainder so the renderer can place them after the signature. + if sec.kind == "text" and i == 0: + description = sec.value + continue + + # Each branch is gated on the parent kind that can actually have the + # section, so a misplaced section (`Args:` on a module) lands in the + # remainder instead of failing on a missing signature. + if sec.kind == "parameters" and isinstance( + parent, (griffe.Class, griffe.Function) + ): + parameters = _merge_parameters(sec.value, parent) + continue + + if sec.kind == "returns" and isinstance(parent, griffe.Function): + returns = sec.value[0] + returns.annotation = ( + returns.annotation.canonical_path + if isinstance(returns.annotation, griffe.Expr) + else returns.annotation + ) + continue + + if sec.kind == "attributes" and isinstance( + parent, (griffe.Module, griffe.Class) + ): + attributes = _merge_attributes(sec.value, parent) + continue + + remainder.append(sec) + + return SimplifiedDocstring(description, parameters, returns, attributes, remainder) + + +# --------------------------------------------------------------------------- +# Signatures +# --------------------------------------------------------------------------- + + +def _render_parameter(p: griffe.Parameter) -> str: + """Render one parameter, with its `*`/`**` prefix and default if it has one.""" + if p.kind == griffe.ParameterKind.var_keyword: + return f"**{p.name}" + if p.kind == griffe.ParameterKind.var_positional: + return f"*{p.name}" + if p.default is not None: + return f"{p.name}={p.default}" + return p.name + + +def build_signature(func: griffe.Function) -> str: + """Render a function's signature, including the `/` and `*` separators. + + griffe stores parameter kinds rather than the separators, so the markers are + reconstructed: `/` closes the positional-only run at the first parameter + that is not positional-only, and `*` opens the keyword-only run. + + Args: + func: The function to render. + + Returns: + The signature, from the opening parenthesis to the return annotation. + """ + tokens: list[str] = [] + # `/` closes a run of positional-only parameters, so it is only owed once one + # has been seen; `*` opens the keyword-only run unless `*args` already did. + open_positional_only = False + keyword_only = False + for p in func.parameters: + if p.kind == griffe.ParameterKind.positional_only: + open_positional_only = True + elif open_positional_only: + tokens.append("/") + open_positional_only = False + + if p.kind == griffe.ParameterKind.var_positional: + keyword_only = True + elif p.kind == griffe.ParameterKind.keyword_only and not keyword_only: + tokens.append("*") + keyword_only = True + + tokens.append(_render_parameter(p)) + if open_positional_only: + tokens.append("/") + + signature = f"({', '.join(tokens)})" + if func.returns: + signature += f" -> {func.returns}" + + return signature + + +# --------------------------------------------------------------------------- +# Walking the package +# --------------------------------------------------------------------------- + + +def parse_module(m: griffe.Object | griffe.Alias) -> Module: + """Walk a module recursively, dropping re-exported (aliased) members. + + Aliases are skipped so a symbol is documented once, on the page for the + module that defines it -- which is also what makes the cross-reference index + single-valued. + + Args: + m: The module to walk. + + Returns: + The module's documented surface. + + Raises: + TypeError: If `m` is not a module. + """ + if not isinstance(m, griffe.Module): + raise TypeError("Module must be a module") + + out = simplify_docstring(m.docstring, m) + res: dict[str, object] = { + "name": m.name, + "path": m.path, + "filepath": m.filepath, + "description": out.description, + "docstring": out.remainder, + "attributes": out.attributes, + "modules": { + name: parse_module(value) + for name, value in m.modules.items() + if not value.is_alias + }, + "classes": { + name: parse_class(value) + for name, value in m.classes.items() + if not value.is_alias + }, + "functions": { + name: parse_function(value) + for name, value in m.functions.items() + if not value.is_alias + }, + } + if m.is_package: + try: + res["version"] = version(m.name) + except AttributeError: + res["version"] = "unknown" + + return t.cast("Module", res) + + +def parse_class(c: griffe.Class) -> Class: + """Walk a class. + + Inherited members are recorded by canonical path and grouped by the class + that defines them, so the renderer can point at the base class rather than + duplicating the documentation. + + Args: + c: The class to walk. + + Returns: + The class's documented surface. + """ + out = simplify_docstring(c.docstring, c) + inherited: dict[str, list[dict[str, str]]] = {} + res: dict[str, object] = { + "name": c.name, + "path": c.path, + "description": out.description, + "parameters": out.parameters, + "attributes": out.attributes, + "docstring": out.remainder, + "functions": { + name: parse_function(value) + for name, value in c.functions.items() + if not value.is_alias + }, + "source": c.source, + "inherited_members": inherited, + } + for member in c.inherited_members.values(): + parent_path = ".".join(member.canonical_path.split(".")[:-1]) + entry = {"kind": member.kind, "path": member.canonical_path} + inherited.setdefault(parent_path, []).append(entry) + return t.cast("Class", res) + + +def parse_function(f: griffe.Function) -> Function: + """Walk a function or method.""" + out = simplify_docstring(f.docstring, f) + return t.cast( + "Function", + { + "name": f.name, + "path": f.path, + "signature": build_signature(f), + "description": out.description, + "parameters": out.parameters, + "returns": out.returns, + "docstring": out.remainder, + "source": f.source, + }, + ) + + +# --------------------------------------------------------------------------- +# Serialisation +# --------------------------------------------------------------------------- + + +class Encoder(griffe.JSONEncoder): + """Serialise the griffe objects `simplify_docstring` leaves in the tree. + + The base class already handles every griffe model (via `as_dict`) plus the + `Path`/`set` values they carry; the one thing it gets wrong for us is + `Expr`, which *has* an `as_dict` and so would serialise as a nested tree + where the consumers want the annotation as written. + """ + + def default(self, obj: object) -> object: + """Return a serialisable representation of `obj`.""" + if isinstance(obj, griffe.Expr): + return str(obj) + return super().default(obj) + + +def main() -> None: + """Dump the API surface of the module named on the command line.""" + parser = argparse.ArgumentParser(description="Dump a Python API surface to JSON") + parser.add_argument("module", type=str, help="The module to document") + parser.add_argument( + "--dir", + "-d", + type=Path, + default=Path(), + help="The directory to write `.json` into", + ) + args = parser.parse_args() + + pkg = parse_module( + griffe.load( + args.module, + docstring_parser="auto", + # The renderer shows each function's source in a collapsible block. + store_source=True, + ) + ) + + out_path = args.dir / f"{args.module}.json" + with out_path.open("w") as file: + json.dump(pkg, file, cls=Encoder, indent=2, full=True) + + +if __name__ == "__main__": + main() diff --git a/docs/scripts/generate-api.mjs b/docs/scripts/generate-api.mjs new file mode 100644 index 0000000..14073c7 --- /dev/null +++ b/docs/scripts/generate-api.mjs @@ -0,0 +1,230 @@ +// Generate the Python API reference MDX from the griffe JSON produced by +// `gen_api_dump.py` (see `docs/README.md`). +// +// `api-mdx.mjs`'s `convert`/`write` do the heavy lifting; this script only +// 1. prunes the griffe dump to the public surface (minus private `_`-prefixed members), +// 2. fixes the package-name segment that `convert` puts in cross-links but +// `write` strips from file paths, and +// 3. emits a `meta.json` so the API section is ordered like the old reference. +import * as fs from 'node:fs/promises'; +import * as path from 'node:path'; +import { convert, write } from './api-mdx.mjs'; +import { API_BASE_URL, buildXrefMap, resolve } from './xref.mjs'; + +const JSON_PATH = path.resolve('src_method.json'); +const OUT_DIR = path.resolve('content/docs/api'); + +// Public modules, in sidebar order, with the title shown for each: every module +// defines one entry point, so the page is named after it. +const MODULES = [ + ['stack', 'src'], + ['apply', 'apply'], + ['compress', 'compress'], +]; +const KEEP = new Set(MODULES.map(([name]) => name)); +const MODULE_GITHUB_PATHS = new Map(MODULES.map(([name]) => [name, `src/src_method/${name}.py`])); + +/** Drop single-underscore (non-dunder) members from a {name: node} map. */ +function prunePrivate(map) { + for (const name of Object.keys(map)) { + if (name.startsWith('_') && !name.startsWith('__')) delete map[name]; + } +} + +/** Recursively strip private classes/functions/submodules from a module node. */ +function pruneModule(mod) { + // The documented modules export functions only; their module-level names + // (`logger`, message constants) are implementation details. + mod.attributes = []; + prunePrivate(mod.classes ?? {}); + prunePrivate(mod.functions ?? {}); + for (const cls of Object.values(mod.classes ?? {})) prunePrivate(cls.functions ?? {}); + for (const sub of Object.values(mod.modules ?? {})) pruneModule(sub); +} + +/** + * Derive the fully-qualified scope a rendered page documents, from its file + * path (before `write` strips the leading package segment): + * `src_method/stack/index.mdx` -> `src_method.stack` (module) + * `src_method/index.mdx` -> `src_method` (package) + */ +function scopeFromPath(filePath) { + return filePath + .replace(/\/index\.mdx$/, '') + .replace(/\.mdx$/, '') + .split('/') + .join('.'); +} + +/** + * Resolve cross-references in a rendered MDX page into real links. Targets are + * Python paths, resolved fully-qualified or relative to `scope`, the page's own + * fully-qualified scope (see `scopeFromPath`): + * `[src][src_method.stack.src]` -> `[src](/api/stack#src)` + * `[src][]` (on a page scoped to `src_method.stack`) -> `[src](/api/stack#src)` + * Unresolved targets are collected in `unresolved` (surfaced by the caller) and + * left untouched. + */ +function resolveXrefs(content, xref, unresolved, scope) { + // Avoid double-wrapping a display text the docstring already backticked. + const code = (text) => (/^`.*`$/.test(text) ? text : `\`${text}\``); + + return content.replaceAll(/\[([^\]]+)\]\[([^\]]*)\]/g, (match, display, target) => { + const name = (target || display).trim().replace(/^`|`$/g, ''); + const url = resolve(name, scope, xref); + if (url) return `[${code(display)}](${url})`; + unresolved.add(name); + return match; + }); +} + +function foldToOneLine(text) { + return String(text).replace(/\s*\n\s*/g, ' ').replace(/\s+/g, ' ').trim(); +} + +/** + * Unescape braces within LaTeX/KaTeX math expressions. + * + * Upstream markdown serialization escapes braces (`\{` and `\}`), but KaTeX + * requires unescaped braces for proper grouping (subscripts, superscripts, and + * command arguments). This function selectively unescapes braces only inside + * `$...$` (inline) and `$$...$$` (display) math spans, e.g. `$r_\{12\}$` -> `$r_{12}$`. + */ +function normalizeMathGroupingEscapes(content) { + const normalizeMathSegment = (math) => + math + .replace(/\\\{/g, '{') + .replace(/\\\}/g, '}'); + + return content.replace(/\$\$[\s\S]*?\$\$|\$(?:\\.|[^$\\])+\$/g, (math) => + normalizeMathSegment(math), + ); +} + +/** + * Extract the raw `Returns:` block from a function source docstring. + * We prefer source extraction because some upstream parsed `returns.description` + * values are already truncated to the first wrapped line. + */ +function extractReturnsFromSource(source) { + if (typeof source !== 'string' || source.length === 0) return null; + + // Find a Returns section inside the function source, ending at the next + // section header (e.g. Args:, Raises:, Note:) or the closing docstring. + const match = source.match( + /\n\s+Returns:\n([\s\S]*?)(?=\n\s+[A-Z][A-Za-z_ ]+:\n|\n\s+["']{3})/, + ); + if (!match) return null; + + const text = match[1] + .split('\n') + .map((line) => line.replace(/^\s+/, '')) + .join(' ') + .trim(); + + return text || null; +} + +/** + * Recover a multi-line `Returns:` description that the dump truncated, by + * re-reading it from the function source. + * + * This is a bandaid over the dump, not a fix. griffe's Google parser defaults to + * `returns_multiple_items`, which splits the block one item per physical line + * and distributes a tuple annotation element-wise across them, so the dump's + * `sec.value[0]` keeps only the first line *and* the wrong annotation + * (`graph_size` is documented as `int`, not `tuple[int, int]`). Passing + * `docstring_options={"returns_multiple_items": False}` to `griffe.load` in + * `gen_api_dump.py` fixes both and retires this whole path -- deferred only + * because it changes the generated pages. + */ +function normalizeFunctionReturnsSection(funcNode) { + const fromSource = extractReturnsFromSource(funcNode?.source); + if (fromSource && funcNode?.returns && typeof funcNode.returns === 'object') { + funcNode.returns.description = foldToOneLine(fromSource); + } +} + +function normalizeFunctionReturns(mod) { + if (!mod || typeof mod !== 'object') return; + + for (const fn of Object.values(mod.functions ?? {})) { + normalizeFunctionReturnsSection(fn); + } + + for (const cls of Object.values(mod.classes ?? {})) { + for (const fn of Object.values(cls.functions ?? {})) { + normalizeFunctionReturnsSection(fn); + } + } + + for (const sub of Object.values(mod.modules ?? {})) { + normalizeFunctionReturns(sub); + } +} + +async function main() { + const pkg = JSON.parse(await fs.readFile(JSON_PATH, 'utf8')); + + // Keep only the documented public submodules. + pkg.modules = Object.fromEntries( + Object.entries(pkg.modules ?? {}).filter(([name]) => KEEP.has(name)), + ); + pruneModule(pkg); + normalizeFunctionReturns(pkg); + + const xref = buildXrefMap(pkg); + const unresolved = new Set(); + + const files = convert(pkg, { baseUrl: API_BASE_URL }); + + for (const file of files) { + file.content = resolveXrefs(file.content, xref, unresolved, scopeFromPath(file.path)); + + // Attach source paths to frontmatter so docs can build GitHub links + // without duplicating the module list in app code. + const modulePrefixMatch = file.path.match(/^src_method\/([^/]+)(?:\/|$)/); + const moduleName = modulePrefixMatch?.[1]; + const githubPath = moduleName ? MODULE_GITHUB_PATHS.get(moduleName) : undefined; + if (githubPath) { + file.frontmatter.githubPath = githubPath; + } + file.content = normalizeMathGroupingEscapes(file.content); + + // Add titles to the frontmatter for the modules we documented. The title + // is used in the sidebar and in the page's tag. + const m = file.path.match(/^src_method\/([^/]+)\/index\.mdx$/); + if (m) { + const entry = MODULES.find(([name]) => name === m[1]); + if (entry) file.frontmatter.title = entry[1]; + } + if (file.path === 'src_method/index.mdx') { + file.frontmatter.title = 'Python API'; + file.frontmatter.description = 'Generated reference for the public src_method Python package.'; + file.frontmatter.githubPath = 'src/src_method/__init__.py'; + } + } + + if (unresolved.size > 0) { + console.warn( + `Warning: ${unresolved.size} cross-reference target(s) did not resolve and were left as-is:\n ` + + [...unresolved].sort().join('\n '), + ); + } + + await fs.rm(OUT_DIR, { recursive: true, force: true }); + await write(files, { outDir: OUT_DIR }); + + // Sidebar ordering for the API section. `index.mdx` is intentionally omitted: + // fumadocs treats it as the folder's own index (so the "Python API" title + // links to `/api`); listing it would add a redundant child duplicating + // the section title in the sidebar. + await fs.writeFile( + path.join(OUT_DIR, 'meta.json'), + JSON.stringify({ title: 'Python API', pages: [...MODULES.map(([n]) => n)] }, null, 2), + ); + + console.log(`Wrote ${files.length} API pages to ${OUT_DIR}`); +} + +await main(); diff --git a/docs/scripts/notebooks_to_mdx.py b/docs/scripts/notebooks_to_mdx.py new file mode 100755 index 0000000..5df50ff --- /dev/null +++ b/docs/scripts/notebooks_to_mdx.py @@ -0,0 +1,185 @@ +#!/usr/bin/env python3 +# Copyright 2026 Algorithmiq +# +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at +# +# http://www.apache.org/licenses/LICENSE-2.0 +# +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. +"""Execute the tutorial notebooks and convert them to Markdown for Fumadocs. + +Each notebook in ``docs/notebooks/<name>/<name>.ipynb`` is executed top to +bottom and rendered to ``docs/content/docs/tutorials/<name>.md``. Execution +fails the build on the first cell error (``allow_errors=False``); this is the +notebook-level "doctest". + +Output images (matplotlib figures, …) and images referenced from markdown cells +are inlined as base64 data URIs so the static export is fully self-contained. +Notebooks are emitted as ``.md`` (not ``.mdx``) so that ``{`` / ``<`` in code +and prose are treated literally and ``$…$`` math is left for ``remark-math``. +""" + +from __future__ import annotations + +import argparse +import base64 +import mimetypes +import re +import sys +from pathlib import Path + +import nbformat +from nbconvert import MarkdownExporter +from nbconvert.preprocessors import ExecutePreprocessor + +DOCS_DIR = Path(__file__).resolve().parent.parent +NB_DIR = DOCS_DIR / "notebooks" +OUT_DIR = DOCS_DIR / "content" / "docs" / "tutorials" +TIMEOUT = 600 # seconds per cell + +_IMG_REF = re.compile(r"!\[([^\]]*)\]\(([^)\s]+)\)") +_H1 = re.compile(r"^\s*#\s+(.+?)\s*$", re.MULTILINE) + + +def discover_notebooks() -> list[str]: + """Return the stems of `docs/notebooks/<stem>/<stem>.ipynb`, alphabetically.""" + return sorted( + p.name + for p in NB_DIR.iterdir() + if p.is_dir() and (p / f"{p.name}.ipynb").is_file() + ) + + +def _notebook_title(nb: nbformat.NotebookNode, stem: str) -> str: + """Extract the page title from the notebook's leading H1 heading.""" + text = "\n".join(cell.source for cell in nb.cells if cell.cell_type == "markdown") + match = _H1.search(text) + return match.group(1).strip() if match else stem.replace("_", " ").title() + + +def title_for(stem: str) -> str: + """Read a notebook's title without executing it.""" + nb = nbformat.read(NB_DIR / stem / f"{stem}.ipynb", as_version=4) + return _notebook_title(nb, stem) + + +def _data_uri(data: bytes, filename: str) -> str: + mime = mimetypes.guess_type(filename)[0] or "image/png" + return f"data:{mime};base64,{base64.b64encode(data).decode('ascii')}" + + +def _inline_images(body: str, resources: dict, nb_dir: Path) -> str: + """Replace image references with self-contained base64 data URIs.""" + outputs: dict[str, bytes] = resources.get("outputs", {}) or {} + + def as_img(alt: str, uri: str) -> str: + # Emit raw HTML rather than markdown image syntax: a `data:` URI looks + # like a relative path to fumadocs' remark-image plugin, which then + # fails trying to read it as a file. Raw <img> bypasses that plugin. + alt = alt.replace('"', """) + return f'<img alt="{alt}" src="{uri}" />' + + def repl(match: re.Match[str]) -> str: + alt, target = match.group(1), match.group(2) + if target.startswith("data:"): + return as_img(alt, target) + name = target.split("/")[-1] + if name in outputs: # image extracted from a cell output + return as_img(alt, _data_uri(outputs[name], name)) + local = (nb_dir / target).resolve() + if local.is_file(): # image committed next to the notebook + return as_img(alt, _data_uri(local.read_bytes(), local.name)) + return match.group(0) + + return _IMG_REF.sub(repl, body) + + +def convert(stem: str) -> Path: + """Execute one notebook and write its Markdown page; return the path.""" + nb_path = NB_DIR / stem / f"{stem}.ipynb" + nb = nbformat.read(nb_path, as_version=4) + title = _notebook_title(nb, stem) + + # Execute with the notebook directory as cwd so relative data loads work. + ExecutePreprocessor(timeout=TIMEOUT, allow_errors=False).preprocess( + nb, {"metadata": {"path": str(nb_path.parent)}} + ) + + exporter = MarkdownExporter() + body, resources = exporter.from_notebook_node(nb) + body = _inline_images(body, resources, nb_path.parent) + + # The frontmatter title becomes the page H1; drop the notebook's own H1. + body = _H1.sub("", body, count=1).lstrip() + + fm = f"---\ntitle: {title}\n---\n\n" + out_path = OUT_DIR / f"{stem}.md" + out_path.write_text(fm + body) + return out_path + + +def write_index(stems: list[str]) -> Path: + """Write the tutorials landing page (index.mdx) listing every notebook.""" + bullets = "\n".join(f"- [{title_for(stem)}](/tutorials/{stem})" for stem in stems) + body = ( + "---\n" + "title: Tutorials\n" + "description: Runnable notebooks applying src_method to concrete " + "problems.\n" + "---\n\n" + "These tutorials work through complete problems end to end. Each one is " + "a notebook executed when the site is built; for the ideas behind the " + "method see [Concepts](/concepts), and for every argument see " + "[Python API](/api).\n\n" + f"{bullets}\n" + ) + out_path = OUT_DIR / "index.mdx" + out_path.write_text(body) + return out_path + + +def main() -> int: + """Convert the selected tutorial notebooks and write the sidebar meta.""" + parser = argparse.ArgumentParser(description=__doc__) + parser.add_argument( + "notebooks", + nargs="*", + help="Notebook stems to convert (default: all). E.g. fermi_hubbard", + ) + args = parser.parse_args() + + OUT_DIR.mkdir(parents=True, exist_ok=True) + stems = discover_notebooks() + selected = ( + [s for s in stems if s in set(args.notebooks)] if args.notebooks else stems + ) + + for stem in selected: + print(f"Executing and converting {stem} …", flush=True) # noqa: T201 + out = convert(stem) + print(f" -> {out.relative_to(DOCS_DIR)}", flush=True) # noqa: T201 + + # Landing page for `/tutorials`. fumadocs picks up `index.mdx` as the + # folder's own index automatically, so the "Tutorials" sidebar/nav title + # links here. Always regenerated from the full discovered list (independent + # of the `selected` subset) so every tutorial stays listed. + write_index(stems) + + # Sidebar ordering + section title for the tutorials folder. "index" is + # deliberately *not* listed: fumadocs already treats `index.mdx` as the + # folder index, so the folder title links to `/tutorials`. Listing it + # would add a redundant child entry duplicating the section title. + meta = OUT_DIR / "meta.json" + pages = ", ".join(f'"{s}"' for s in stems) + meta.write_text(f'{{\n "title": "Tutorials",\n "pages": [{pages}]\n}}\n') + return 0 + + +if __name__ == "__main__": + sys.exit(main()) diff --git a/docs/scripts/remark-xref.mjs b/docs/scripts/remark-xref.mjs new file mode 100644 index 0000000..5dd6958 --- /dev/null +++ b/docs/scripts/remark-xref.mjs @@ -0,0 +1,75 @@ +// Remark plugin: resolve mkdocstrings-style cross-references in prose MDX. +// +// Undefined markdown reference links stay as literal *text* nodes (micromark does +// not emit a `linkReference` without a matching definition), so we operate on +// text nodes via `mdast-util-find-and-replace`. Real `[text](url)` links and +// `[@citation]` nodes do not match the two-bracket pattern and are left untouched. +import * as fs from 'node:fs'; +import * as path from 'node:path'; +import { findAndReplace } from 'mdast-util-find-and-replace'; +import { buildXrefMap, resolve } from './xref.mjs'; + +// Prose is scoped to the package root, so a bare `[src][]` +// resolves via the scope walk in `resolve`. +const SCOPE = 'src_method'; +// Same pattern as `resolveXrefs` in generate-api.mjs. +const XREF_PATTERN = /\[([^\]]+)\]\[([^\]]*)\]/g; + +const JSON_PATH = path.resolve('src_method.json'); + +let xref = null; +let byLeaf = null; +try { + xref = buildXrefMap(JSON.parse(fs.readFileSync(JSON_PATH, 'utf8'))); + // The public classes/functions live in submodules (e.g. + // `src_method.stack.src`) but authors know them by the + // bare name they import, so index every symbol by its leaf name as a fallback -- + // dropping any leaf that maps to more than one URL. + byLeaf = new Map(); + const clashed = new Set(); + for (const [dotted, url] of xref) { + const leaf = dotted.split('.').pop(); + if (clashed.has(leaf)) continue; + if (byLeaf.has(leaf) && byLeaf.get(leaf) !== url) { + byLeaf.delete(leaf); + clashed.add(leaf); + } else { + byLeaf.set(leaf, url); + } + } +} catch (err) { + console.warn( + `remark-xref: could not read ${JSON_PATH} (${err.code ?? err.message}); ` + + 'prose cross-references will be left as-is. Run `docs/scripts/gen_api_dump.py` and `generate-api.mjs` first.', + ); +} + +const unbacktick = (text) => text.replace(/^`(.*)`$/, '$1'); + +export default function remarkXref() { + return (tree, file) => { + if (!xref) return; + findAndReplace(tree, [ + [ + XREF_PATTERN, + (_match, display, target) => { + const name = unbacktick((target || display).trim()); + const url = resolve(name, SCOPE, xref) ?? byLeaf.get(name) ?? null; + if (!url) { + // `return false` leaves the text untouched. `console.warn`, not a + // vfile message -- fumadocs/next does not print those. + const where = file.path ? path.relative(process.cwd(), file.path) : 'prose'; + console.warn(`remark-xref: unresolved cross-reference [${display}][${target}] in ${where}`); + return false; + } + // Symbol names read as code, matching the API pages' styling. + return { + type: 'link', + url, + children: [{ type: 'inlineCode', value: unbacktick(display.trim()) }], + }; + }, + ], + ]); + }; +} diff --git a/docs/scripts/xref.mjs b/docs/scripts/xref.mjs new file mode 100644 index 0000000..c394afb --- /dev/null +++ b/docs/scripts/xref.mjs @@ -0,0 +1,67 @@ +// Shared cross-reference machinery for the docs pipeline: the API-reference +// generator (`generate-api.mjs`) and the prose remark plugin (`remark-xref.mjs`) +// must map a Python symbol path to the same doc URL, so these helpers -- built +// from the griffe dump `src_method.json` -- are the single source of truth for it. + +export const API_BASE_URL = '/api'; + +/** + * Turn a fully-qualified symbol path into the URL of the page that documents + * it. Must agree with `getHref` in `api-mdx.mjs`, which mints the same URLs for + * the links inside the generated pages: both drop the leading package segment, + * because that is what `write` strips from the file paths. + */ +export function pageUrl(dottedPath) { + return ( + '/' + + [...API_BASE_URL.split('/'), ...dottedPath.split('.').slice(1)] + .filter((v) => v.length > 0) + .join('/') + ); +} + +/** + * Build a map from fully-qualified symbol path to the doc URL that documents it. + * + * Classes and modules get their own page. Functions, methods and attributes are + * rendered inline on their parent's page; `PyFunction`/`PyAttribute` (in + * `src/components/py.tsx`) give each card an `id` equal to its member name, so + * those members resolve to their parent page with a `#<name>` fragment that + * jumps to the definition. + */ +export function buildXrefMap(pkg) { + const map = new Map(); + + const addScope = (node, pageUrl) => { + map.set(node.path, pageUrl); + for (const fn of Object.values(node.functions ?? {})) map.set(fn.path, `${pageUrl}#${fn.name}`); + for (const attr of node.attributes ?? []) + map.set(`${node.path}.${attr.name}`, `${pageUrl}#${attr.name}`); + }; + + const visit = (mod) => { + addScope(mod, pageUrl(mod.path)); + for (const cls of Object.values(mod.classes ?? {})) addScope(cls, pageUrl(cls.path)); + for (const sub of Object.values(mod.modules ?? {})) visit(sub); + }; + visit(pkg); + return map; +} + +/** + * Resolve a cross-reference target to a page URL, or `null`. A fully-qualified + * target hits `xref` directly; an unqualified (or class-relative) target is + * resolved against the current page's scope, walking outward from the nearest + * enclosing symbol to the package root. Nearest scope wins, so resolution is + * deterministic -- a bare name only ever binds to something reachable from its + * own scope chain, never to a same-named symbol in an unrelated module. + */ +export function resolve(name, scope, xref) { + if (xref.has(name)) return xref.get(name); + const parts = scope.split('.'); + for (let i = parts.length; i > 0; i--) { + const url = xref.get(`${parts.slice(0, i).join('.')}.${name}`); + if (url) return url; + } + return null; +} diff --git a/docs/source.config.ts b/docs/source.config.ts new file mode 100644 index 0000000..9804c15 --- /dev/null +++ b/docs/source.config.ts @@ -0,0 +1,97 @@ +import { defineConfig, defineDocs } from 'fumadocs-mdx/config'; +import { metaSchema, pageSchema } from 'fumadocs-core/source/schema'; +import { z } from 'zod'; +import remarkMath from 'remark-math'; +import rehypeKatex from 'rehype-katex'; +import rehypeCitation from 'rehype-citation'; +import rehypeRaw from 'rehype-raw'; +import remarkXref from './scripts/remark-xref.mjs'; + +// The tutorial pages are generated as `.md` (not `.mdx`) and embed their +// figures as raw `<img src="data:image/png;base64,…">` tags. In md-format +// MDX leaves `<` literal, so those tags become "raw" HTML nodes — which MDX's +// internal `rehype-remove-raw` strips just after the user rehype plugins run, +// leaving the images blank in the export. `rehype-raw` reparses raw HTML into +// real hast nodes *before* that removal, so the `<img>` survives. We gate it to +// `.md` files: `.mdx` pages carry MDX JSX nodes that rehype-raw would mangle. +function rehypeRawMarkdown() { + // Pass MDX nodes through untouched: fumadocs injects an `mdxjsEsm` export + // (for `includeProcessedMarkdown`) even into md-format trees, and rehype-raw + // cannot compile MDX nodes. + const transform = rehypeRaw({ + passThrough: [ + 'mdxjsEsm', + 'mdxFlowExpression', + 'mdxTextExpression', + 'mdxJsxFlowElement', + 'mdxJsxTextElement', + ], + }); + return (tree: import('hast').Root, file: import('vfile').VFile) => { + if (file.path && !file.path.endsWith('.md')) return tree; + return transform(tree, file); + }; +} + +// `rehypeCitation` links each `[@key]` to a `#bib-key` anchor on the same page, +// but the bibliography is only written out on the references page (see +// `suppressBibliography` below). Point the links there instead. +function rehypeCitationsToReferences() { + const visit = (node: import('hast').Nodes) => { + if (node.type === 'element' && node.tagName === 'a') { + const href = node.properties?.href; + if (typeof href === 'string' && href.startsWith('#bib-')) { + node.properties.href = `/references${href}`; + } + } + if ('children' in node) node.children.forEach(visit); + }; + return (tree: import('hast').Root) => visit(tree); +} + +// You can customize Zod schemas for frontmatter and `meta.json` here +// see https://fumadocs.dev/docs/mdx/collections +export const docs = defineDocs({ + dir: 'content/docs', + docs: { + schema: pageSchema.extend({ + githubPath: z.string().optional(), + }), + postprocess: { + includeProcessedMarkdown: true, + }, + }, + meta: { + schema: metaSchema, + }, +}); + +export default defineConfig({ + mdxOptions: { + // Tutorial pages inline figures as base64 `data:` URIs; keep them as plain + // `<img src>` instead of turning images into static imports. + remarkImageOptions: { useImport: false }, + remarkPlugins: [remarkMath, remarkXref], + // `rehypeCitation` resolves `[@key]` references against bibliography.bib + // (replacing sphinxcontrib-bibtex); `rehypeKatex` renders the math nodes + // produced by `remarkMath`. Both run before the default fumadocs plugins. + rehypePlugins: (plugins) => [ + rehypeRawMarkdown, + rehypeKatex, + [ + rehypeCitation, + { + bibliography: './bibliography.bib', + linkCitations: true, + // The references page hand-writes the formatted bibliography (with + // `id="..."` anchors matching the bib keys), so suppress the + // per-page bibliography that rehype-citation would otherwise append + // to every page that uses an inline `[@key]` citation. + suppressBibliography: true, + }, + ], + rehypeCitationsToReferences, + ...plugins, + ], + }, +}); diff --git a/docs/src/app/(docs)/[[...slug]]/page.tsx b/docs/src/app/(docs)/[[...slug]]/page.tsx new file mode 100644 index 0000000..8790b32 --- /dev/null +++ b/docs/src/app/(docs)/[[...slug]]/page.tsx @@ -0,0 +1,77 @@ +import { getPageImage, getPageMarkdownUrl, source } from '@/lib/source'; +import { + DocsBody, + DocsDescription, + DocsPage, + DocsTitle, + MarkdownCopyButton, + ViewOptionsPopover, +} from 'fumadocs-ui/layouts/docs/page'; +import { notFound } from 'next/navigation'; +import { getMDXComponents } from '@/components/mdx'; +import type { Metadata } from 'next'; +import { createRelativeLink } from 'fumadocs-ui/mdx'; +import { basePath, gitConfig } from '@/lib/shared'; + +function getPageGithubPath(page: (typeof source)['$inferPage']) { + const fromFrontmatter = page.data?.githubPath; + if (typeof fromFrontmatter === 'string' && fromFrontmatter.length > 0) { + return fromFrontmatter; + } + + if (page.slugs[0] !== 'api') { + return `docs/content/docs/${page.path}`; + } + + return 'src/src_method/__init__.py'; +} + +export default async function Page(props: PageProps<'/[[...slug]]'>) { + const params = await props.params; + const page = source.getPage(params.slug); + if (!page) notFound(); + + const MDX = page.data.body; + const markdownUrl = `${basePath}${getPageMarkdownUrl(page).url}`; + + return ( + <DocsPage toc={page.data.toc} full={page.data.full}> + <DocsTitle>{page.data.title}</DocsTitle> + <DocsDescription className="mb-0">{page.data.description}</DocsDescription> + <div className="flex flex-row gap-2 items-center border-b pb-6"> + <MarkdownCopyButton markdownUrl={markdownUrl} /> + <ViewOptionsPopover + markdownUrl={markdownUrl} + githubUrl={`https://github.com/${gitConfig.user}/${gitConfig.repo}/blob/${gitConfig.branch}/${getPageGithubPath(page)}`} + /> + + </div> + <DocsBody> + <MDX + components={getMDXComponents({ + // this allows you to link to other pages with relative file paths + a: createRelativeLink(source, page), + })} + /> + </DocsBody> + </DocsPage> + ); +} + +export async function generateStaticParams() { + return source.generateParams(); +} + +export async function generateMetadata(props: PageProps<'/[[...slug]]'>): Promise<Metadata> { + const params = await props.params; + const page = source.getPage(params.slug); + if (!page) notFound(); + + return { + title: page.data.title, + description: page.data.description, + openGraph: { + images: getPageImage(page).url, + }, + }; +} diff --git a/docs/src/app/(docs)/layout.tsx b/docs/src/app/(docs)/layout.tsx new file mode 100644 index 0000000..0c2bf05 --- /dev/null +++ b/docs/src/app/(docs)/layout.tsx @@ -0,0 +1,11 @@ +import { source } from '@/lib/source'; +import { DocsLayout } from 'fumadocs-ui/layouts/docs'; +import { baseOptions } from '@/lib/layout.shared'; + +export default function Layout({ children }: LayoutProps<'/'>) { + return ( + <DocsLayout tree={source.getPageTree()} {...baseOptions()}> + {children} + </DocsLayout> + ); +} diff --git a/docs/src/app/api/search/route.ts b/docs/src/app/api/search/route.ts new file mode 100644 index 0000000..aaaff7f --- /dev/null +++ b/docs/src/app/api/search/route.ts @@ -0,0 +1,9 @@ +import { source } from '@/lib/source'; +import { createFromSource } from 'fumadocs-core/search/server'; + +export const revalidate = false; + +export const { staticGET: GET } = createFromSource(source, { + // https://docs.orama.com/docs/orama-js/supported-languages + language: 'english', +}); diff --git a/docs/src/app/global.css b/docs/src/app/global.css new file mode 100644 index 0000000..d2b4cf9 --- /dev/null +++ b/docs/src/app/global.css @@ -0,0 +1,64 @@ +@import 'tailwindcss'; +@import 'fumadocs-ui/css/neutral.css'; +@import 'fumadocs-ui/css/preset.css'; + +/* + * Kind badges on the generated Python API reference cards (see + * `src/components/py.tsx`). The `fdpy-` prefix and these two hues are inherited + * from fumadocs-python's stylesheet, which the components used to come from. + */ +@theme inline { + --color-fdpy-func: oklch(79.2% 0.209 151.711); + --color-fdpy-attribute: oklch(74% 0.238 322.16); +} + +/* + * Algorithmiq brand accents (algorithmiq.fi). + * + * The main content keeps the default Fumadocs surfaces; we only brand the + * accent colour (teal #08a89d / #1bb2b2) and tint the left sidebar with the + * brand's pale "green" (mint, oklch(95.61% .0633 170)). Token names mirror the + * Fumadocs preset (see fumadocs-ui/css/lib/default-colors.css). + */ +@theme { + --color-fd-primary: hsl(176, 84%, 34%); /* brand teal #08a89d */ + --color-fd-ring: hsl(176, 84%, 34%); +} + +.dark { + --color-fd-primary: hsl(178, 66%, 56%); /* bright teal, ≈ #1bb2b2 lifted */ + --color-fd-ring: hsl(178, 66%, 56%); +} + +/* + * Left sidebar. Its surface is painted with `bg-fd-card`, so scoping the card + * (and hover/border) tokens here tints only the sidebar, leaving the body's + * cards at their defaults. Active items still pick up the teal `--color-fd-primary`. + */ +#nd-sidebar { + --color-fd-card: oklch(95.61% 0.0633 170); /* brand --color-green (mint) */ + --color-fd-accent: hsl(160, 50%, 84%); /* deeper mint, visible on hover */ + --color-fd-accent-foreground: hsl(180, 56%, 18%); + --color-fd-border: hsla(172, 42%, 70%, 0.6); +} + +.dark #nd-sidebar { + --color-fd-card: hsl(190, 33%, 9%); /* deep teal-tinted surface */ + --color-fd-accent: hsl(188, 32%, 16%); + --color-fd-accent-foreground: hsl(178, 60%, 76%); + --color-fd-border: hsla(180, 35%, 38%, 0.3); +} + +/* Body copy reads better in GT-Planar Light than the default weight. */ +.prose p { + font-weight: 300; +} + +html { + scrollbar-gutter: stable; +} + +html > body[data-scroll-locked] { + margin-right: 0px !important; + --removed-body-scroll-bar-size: 0px !important; +} diff --git a/docs/src/app/icon.svg b/docs/src/app/icon.svg new file mode 100644 index 0000000..c1d4720 --- /dev/null +++ b/docs/src/app/icon.svg @@ -0,0 +1,21 @@ +<?xml version="1.0" encoding="UTF-8"?> +<svg id="Symbol_color_black" xmlns="http://www.w3.org/2000/svg" xmlns:xlink="http://www.w3.org/1999/xlink" viewBox="0 0 90 90"> + <defs> + <style> + .cls-1 { + fill: url(#linear-gradient); + } + </style> + <linearGradient id="linear-gradient" x1="7.18" y1="45" x2="82.82" y2="45" gradientUnits="userSpaceOnUse"> + <stop offset="0" stop-color="#000"/> + <stop offset=".04" stop-color="#000d0c"/> + <stop offset=".21" stop-color="#003c38"/> + <stop offset=".38" stop-color="#00635c"/> + <stop offset=".54" stop-color="#008178"/> + <stop offset=".7" stop-color="#00978c"/> + <stop offset=".86" stop-color="#00a498"/> + <stop offset="1" stop-color="#00a99d"/> + </linearGradient> + </defs> + <path class="cls-1" d="M64.89,19.97c2.92-3.32,5.58-5.41,7.86-5.41.96,0,1.73.39,2.35,1.19,1.71,2.22,1.98,7.34.64,12.44l-.26.99,2.59.86.31-1.1c1.88-6.75,1.65-12.56-.61-15.53-1.18-1.56-2.92-2.38-5.02-2.38-3.59,0-7.13,2.15-10.74,5.71-5.04-5.14-10.79-8.4-17.02-8.4-10.02,0-19.78,8.18-27.48,23.03-6.18,11.93-10.34,27.18-10.34,37.96,0,10.18,3.52,12.32,6.48,12.32,8.8,0,20.05-16.01,31.16-32.68,10.56,18.46,23.84,32.68,31.53,32.68,4.06,0,6.48-4.6,6.48-12.32,0-13.76-6.94-35.89-17.93-49.37ZM44.19,40.89c-.06.1-.13.19-.19.29-1.19-2.15-2.29-4.3-3.31-6.43l-.48-1-2.47,1.23.43.95c1.23,2.74,2.54,5.44,3.92,8.08-.35.52-.71,1.05-1.06,1.57-10.32,15.35-21,31.21-27.38,31.21-.74,0-1.61-1.62-1.61-6.19,0-10.62,4.65-26.21,9.24-36.12,3.96-8.54,12.3-22.88,23.71-22.88,5.48,0,10.31,3.52,14.27,8.11-4.23,4.9-8.58,11.42-13.23,18.41-.61.92-1.23,1.84-1.85,2.77ZM76.35,76.78c-2.51,0-8.09-3.28-16.19-12.47-4.76-5.4-9.37-11.74-13.36-18.31.2-.31.41-.61.61-.92l.66-1c1.45-2.17,2.87-4.32,4.24-6.42,3.4-5.18,6.72-10.23,9.81-14.28,2.69,3.81,4.84,7.89,6.36,11.14,4.71,10.04,9.47,25.65,9.47,36.08,0,4.57-.86,6.19-1.61,6.19Z"/> +</svg> diff --git a/docs/src/app/layout.tsx b/docs/src/app/layout.tsx new file mode 100644 index 0000000..a59322e --- /dev/null +++ b/docs/src/app/layout.tsx @@ -0,0 +1,27 @@ +import { RootProvider } from 'fumadocs-ui/provider/next'; +import { gtPlanar } from '@/lib/fonts'; +import { basePath, siteUrl } from '@/lib/shared'; +import type { Metadata } from 'next'; +import './global.css'; +// KaTeX styles for math rendered by rehype-katex. +import 'katex/dist/katex.min.css'; + +export const metadata: Metadata = { + metadataBase: new URL(siteUrl), +}; + +export default function Layout({ children }: LayoutProps<'/'>) { + return ( + <html lang="en" className={gtPlanar.className} suppressHydrationWarning> + <body className="flex flex-col min-h-screen"> + <RootProvider + // The docs site is exported as static files, so search must load the + // prebuilt Orama index instead of calling the dynamic query API. + search={{ options: { type: 'static', api: `${basePath}/api/search` } }} + > + {children} + </RootProvider> + </body> + </html> + ); +} diff --git a/docs/src/app/llms-full.txt/route.ts b/docs/src/app/llms-full.txt/route.ts new file mode 100644 index 0000000..d494d2c --- /dev/null +++ b/docs/src/app/llms-full.txt/route.ts @@ -0,0 +1,10 @@ +import { getLLMText, source } from '@/lib/source'; + +export const revalidate = false; + +export async function GET() { + const scan = source.getPages().map(getLLMText); + const scanned = await Promise.all(scan); + + return new Response(scanned.join('\n\n')); +} diff --git a/docs/src/app/llms.mdx/docs/[[...slug]]/route.ts b/docs/src/app/llms.mdx/docs/[[...slug]]/route.ts new file mode 100644 index 0000000..250181a --- /dev/null +++ b/docs/src/app/llms.mdx/docs/[[...slug]]/route.ts @@ -0,0 +1,23 @@ +import { getLLMText, getPageMarkdownUrl, source } from '@/lib/source'; +import { notFound } from 'next/navigation'; + +export const revalidate = false; + +export async function GET(_req: Request, { params }: RouteContext<'/llms.mdx/docs/[[...slug]]'>) { + const { slug } = await params; + const page = source.getPage(slug?.slice(0, -1)); + if (!page) notFound(); + + return new Response(await getLLMText(page), { + headers: { + 'Content-Type': 'text/markdown', + }, + }); +} + +export function generateStaticParams() { + return source.getPages().map((page) => ({ + lang: page.locale, + slug: getPageMarkdownUrl(page).segments, + })); +} diff --git a/docs/src/app/llms.txt/route.ts b/docs/src/app/llms.txt/route.ts new file mode 100644 index 0000000..6ec5475 --- /dev/null +++ b/docs/src/app/llms.txt/route.ts @@ -0,0 +1,8 @@ +import { source } from '@/lib/source'; +import { llms } from 'fumadocs-core/source'; + +export const revalidate = false; + +export async function GET() { + return new Response(await llms(source).index()); +} diff --git a/docs/src/app/og/docs/[...slug]/route.tsx b/docs/src/app/og/docs/[...slug]/route.tsx new file mode 100644 index 0000000..877166d --- /dev/null +++ b/docs/src/app/og/docs/[...slug]/route.tsx @@ -0,0 +1,28 @@ +import { getPageImage, source } from '@/lib/source'; +import { notFound } from 'next/navigation'; +import { ImageResponse } from 'next/og'; +import { generate as DefaultImage } from 'fumadocs-ui/og'; +import { appName } from '@/lib/shared'; + +export const revalidate = false; + +export async function GET(_req: Request, { params }: RouteContext<'/og/docs/[...slug]'>) { + const { slug } = await params; + const page = source.getPage(slug.slice(0, -1)); + if (!page) notFound(); + + return new ImageResponse( + <DefaultImage title={page.data.title} description={page.data.description} site={appName} />, + { + width: 1200, + height: 630, + }, + ); +} + +export function generateStaticParams() { + return source.getPages().map((page) => ({ + lang: page.locale, + slug: getPageImage(page).segments, + })); +} diff --git a/docs/src/components/figure.tsx b/docs/src/components/figure.tsx new file mode 100644 index 0000000..4a5909f --- /dev/null +++ b/docs/src/components/figure.tsx @@ -0,0 +1,22 @@ +// Fumadocs ships no figure/caption pair, so the benchmarks page (and any other +// page with images) rolled its own caption as a plain paragraph after the +// image. This gives that pattern a real `<figure>`/`<figcaption>` and matches +// it visually to the muted, small-text captions already used for API cards. + +import type { ReactNode } from 'react'; + +export function Figure({ children }: { children?: ReactNode }) { + // Markdown wraps a lone image in a `<p>`, and prose typography puts its own + // margin on both: `mb-0` on the `<p>` and `my-0` on the `<img>` (a block + // element with no border/padding around it, so its margin would otherwise + // collapse straight through the `<p>` and swamp `Caption`'s margin-top). + return <figure className="my-6 [&>p]:mb-0 [&_img]:my-0">{children}</figure>; +} + +export function Caption({ children }: { children?: ReactNode }) { + return ( + <figcaption className="text-fd-muted-foreground text-sm mt-4 prose-no-margin"> + {children} + </figcaption> + ); +} diff --git a/docs/src/components/logo.tsx b/docs/src/components/logo.tsx new file mode 100644 index 0000000..88e0ad5 --- /dev/null +++ b/docs/src/components/logo.tsx @@ -0,0 +1,28 @@ +/** + * Algorithmiq's "wave" symbol (from algorithmiq.fi/favicon.svg), redrawn with + * `currentColor` so it inherits the brand teal and stays legible in both light + * and dark mode. The wordmark renders the app name in the inherited GT-Planar. + */ +export function AlgorithmiqMark({ className }: { className?: string }) { + return ( + <svg + viewBox="0 0 90 90" + role="img" + aria-label="Algorithmiq" + fill="currentColor" + className={className} + > + <path d="M64.89,19.97c2.92-3.32,5.58-5.41,7.86-5.41.96,0,1.73.39,2.35,1.19,1.71,2.22,1.98,7.34.64,12.44l-.26.99,2.59.86.31-1.1c1.88-6.75,1.65-12.56-.61-15.53-1.18-1.56-2.92-2.38-5.02-2.38-3.59,0-7.13,2.15-10.74,5.71-5.04-5.14-10.79-8.4-17.02-8.4-10.02,0-19.78,8.18-27.48,23.03-6.18,11.93-10.34,27.18-10.34,37.96,0,10.18,3.52,12.32,6.48,12.32,8.8,0,20.05-16.01,31.16-32.68,10.56,18.46,23.84,32.68,31.53,32.68,4.06,0,6.48-4.6,6.48-12.32,0-13.76-6.94-35.89-17.93-49.37ZM44.19,40.89c-.06.1-.13.19-.19.29-1.19-2.15-2.29-4.3-3.31-6.43l-.48-1-2.47,1.23.43.95c1.23,2.74,2.54,5.44,3.92,8.08-.35.52-.71,1.05-1.06,1.57-10.32,15.35-21,31.21-27.38,31.21-.74,0-1.61-1.62-1.61-6.19,0-10.62,4.65-26.21,9.24-36.12,3.96-8.54,12.3-22.88,23.71-22.88,5.48,0,10.31,3.52,14.27,8.11-4.23,4.9-8.58,11.42-13.23,18.41-.61.92-1.23,1.84-1.85,2.77ZM76.35,76.78c-2.51,0-8.09-3.28-16.19-12.47-4.76-5.4-9.37-11.74-13.36-18.31.2-.31.41-.61.61-.92l.66-1c1.45-2.17,2.87-4.32,4.24-6.42,3.4-5.18,6.72-10.23,9.81-14.28,2.69,3.81,4.84,7.89,6.36,11.14,4.71,10.04,9.47,25.65,9.47,36.08,0,4.57-.86,6.19-1.61,6.19Z" /> + </svg> + ); +} + +/** Nav-bar brand lockup: Algorithmiq mark + package wordmark. */ +export function Logo({ name }: { name: string }) { + return ( + <span className="inline-flex items-center gap-2"> + <AlgorithmiqMark className="size-5 text-fd-primary" /> + <span className="font-medium">{name}</span> + </span> + ); +} diff --git a/docs/src/components/mdx.tsx b/docs/src/components/mdx.tsx new file mode 100644 index 0000000..053f110 --- /dev/null +++ b/docs/src/components/mdx.tsx @@ -0,0 +1,37 @@ +import defaultMdxComponents from 'fumadocs-ui/mdx'; +import * as Py from '@/components/py'; +import { Figure, Caption } from '@/components/figure'; +import type { MDXComponents } from 'mdx/types'; +import type { ImgHTMLAttributes } from 'react'; + +// The tutorial pages embed matplotlib figures as raw `<img src="data:…">` tags +// with no intrinsic dimensions. fumadocs' default `img` wraps Next.js' `Image`, +// which throws ("missing required width property") without width/height. Render +// those as a plain `<img>`; anything that does carry width/height (real image +// files) still goes through the optimized fumadocs component. +function Img({ src, ...props }: ImgHTMLAttributes<HTMLImageElement>) { + const DefaultImg = defaultMdxComponents.img!; + if (props.width == null && props.height == null) { + // eslint-disable-next-line @next/next/no-img-element + return <img src={src} {...props} />; + } + return <DefaultImg src={src} {...props} />; +} + +export function getMDXComponents(components?: MDXComponents) { + return { + ...defaultMdxComponents, + // Py* components (plus Tab/Tabs) used by the generated Python API pages. + ...Py, + Figure, + Caption, + img: Img, + ...components, + } satisfies MDXComponents; +} + +export const useMDXComponents = getMDXComponents; + +declare global { + type MDXProvidedComponents = ReturnType<typeof getMDXComponents>; +} diff --git a/docs/src/components/py.tsx b/docs/src/components/py.tsx new file mode 100644 index 0000000..6a9c86e --- /dev/null +++ b/docs/src/components/py.tsx @@ -0,0 +1,155 @@ +// The component vocabulary of the generated Python API reference: the MDX under +// `content/docs/api/` is written in terms of these, by `scripts/api-mdx.mjs`. +// +// Derived from the React half of fumadocs-python (MIT, (c) 2023 Fuma); see +// `scripts/gen_api_dump.py` for the full notice. +// +// `PyFunction` and `PyAttribute` carry `id={name}`: that is the `#<member>` +// fragment `buildXrefMap` (scripts/xref.mjs) appends for members, which are +// documented inline on their parent's page rather than on one of their own. + +import { + Collapsible, + CollapsibleContent, + CollapsibleTrigger, +} from 'fumadocs-ui/components/ui/collapsible'; +import { buttonVariants } from 'fumadocs-ui/components/ui/button'; +import { highlight } from 'fumadocs-core/highlight'; +import { ChevronRight } from 'lucide-react'; +import { cn } from '@/lib/cn'; +import type { ComponentProps, ReactNode } from 'react'; + +export { Tab, Tabs } from 'fumadocs-ui/components/tabs'; + +// The `scroll-mt` keeps a card clear of the sticky header when an anchor jumps +// to it, so it belongs with the card surface itself, not the anchored members. +const card = 'bg-fd-card rounded-lg text-sm my-6 p-3 border scroll-mt-24'; + +/** The kind badge in a card's header; the colours come from `global.css`. */ +function Badge({ kind }: { kind: 'func' | 'attribute' | 'param' }) { + const color = { + func: 'bg-fdpy-func/10 text-fdpy-func border-fdpy-func/50', + attribute: 'bg-fdpy-attribute/10 text-fdpy-attribute border-fdpy-attribute/50', + param: 'bg-fd-primary/10 text-fd-primary border-fd-primary/10', + }[kind]; + return ( + <code className={cn('text-xs font-medium border p-1 rounded-lg not-prose', color)}>{kind}</code> + ); +} + +/** + * A syntax-highlighted code span. Async (it awaits shiki), so it only ever + * renders on the server -- which is fine, every caller here is a server + * component. Everything rendered here is Python, so the language is not a prop. + */ +async function InlineCode({ code, ...rest }: { code: string } & ComponentProps<'span'>) { + return highlight(code, { + lang: 'python', + components: { + pre: (props) => <span {...props} {...rest} className={cn(rest.className, props.className)} />, + }, + }); +} + +export function PyFunction(props: { name: string; type: string; children?: ReactNode }) { + return ( + <figure id={props.name} className={card}> + <div className="flex gap-2 items-center font-mono flex-wrap mb-4"> + <Badge kind="func" /> + {props.name} + <InlineCode + className="not-prose text-xs text-fd-muted-foreground" + code={props.type} + /> + </div> + <div className="text-fd-muted-foreground prose-no-margin">{props.children}</div> + </figure> + ); +} + +export function PyAttribute(props: { + name: string; + type?: string; + value?: string; + children?: ReactNode; +}) { + return ( + <figure id={props.name} className={card}> + <div className="flex gap-2 items-center flex-wrap font-mono mb-4"> + <Badge kind="attribute" /> + {props.name} + {props.type && ( + <InlineCode + className="not-prose text-fd-muted-foreground text-xs" + code={props.type} + /> + )} + </div> + <div className="text-fd-muted-foreground prose-no-margin"> + {props.value && ( + <InlineCode className="not-prose text-xs" code={`= ${props.value}`} /> + )} + {props.children} + </div> + </figure> + ); +} + +export function PyParameter(props: { + name: string; + type?: string; + value?: string; + children?: ReactNode; +}) { + return ( + // Square middle corners, rounded only at the ends, so the parameters of one + // function stack into a single seamless list. + <div + data-parameter="" + className="bg-fd-secondary text-sm p-3 border shadow-md rounded-none first:rounded-t-lg last:rounded-b-lg" + > + <div className="flex flex-wrap gap-2 items-center font-mono text-fd-foreground"> + <Badge kind="param" /> + {props.name} + {props.type && ( + <InlineCode + className="ms-auto text-fd-muted-foreground not-prose text-xs" + code={props.type} + /> + )} + </div> + <div className="text-fd-muted-foreground prose-no-margin mt-4 empty:hidden"> + {props.value ? ( + <InlineCode code={`= ${props.value}`} className="not-prose text-xs" /> + ) : null} + {props.children} + </div> + </div> + ); +} + +export function PyFunctionReturn({ type, children }: { type?: string; children?: ReactNode }) { + return ( + <div className="border bg-fd-secondary rounded-lg p-3 mt-2"> + <div className="flex flex-wrap gap-2 not-prose"> + <p className="font-medium me-auto">Returns</p> + <InlineCode code={type ?? 'None'} className="text-xs" /> + </div> + {children} + </div> + ); +} + +export function PySourceCode({ children }: { children?: ReactNode }) { + return ( + <Collapsible className="my-6"> + <CollapsibleTrigger + className={cn(buttonVariants({ color: 'secondary', size: 'sm', className: 'group' }))} + > + Source Code + <ChevronRight className="size-3.5 text-fd-muted-foreground group-data-[state=open]:rotate-90" /> + </CollapsibleTrigger> + <CollapsibleContent className="prose-no-margin">{children}</CollapsibleContent> + </Collapsible> + ); +} diff --git a/docs/src/lib/cn.ts b/docs/src/lib/cn.ts new file mode 100644 index 0000000..241ffb3 --- /dev/null +++ b/docs/src/lib/cn.ts @@ -0,0 +1 @@ +export { cn } from 'cnfast'; diff --git a/docs/src/lib/fonts.ts b/docs/src/lib/fonts.ts new file mode 100644 index 0000000..f3a074d --- /dev/null +++ b/docs/src/lib/fonts.ts @@ -0,0 +1,27 @@ +import localFont from 'next/font/local'; + +/** + * Algorithmiq's brand typeface, GT-Planar (self-hosted woff2). + */ +export const gtPlanar = localFont({ + src: [ + { + path: '../../public/fonts/gt-planar/GT-Planar-Thin.woff2', + weight: '100', + style: 'normal', + }, + { + path: '../../public/fonts/gt-planar/GT-Planar-Light.woff2', + weight: '300', + style: 'normal', + }, + { + path: '../../public/fonts/gt-planar/GT-Planar-Regular.woff2', + weight: '400', + style: 'normal', + }, + ], + variable: '--font-gt-planar', + display: 'swap', + fallback: ['ui-sans-serif', 'system-ui', 'sans-serif'], +}); diff --git a/docs/src/lib/layout.shared.tsx b/docs/src/lib/layout.shared.tsx new file mode 100644 index 0000000..b38ec01 --- /dev/null +++ b/docs/src/lib/layout.shared.tsx @@ -0,0 +1,13 @@ +import type { BaseLayoutProps } from 'fumadocs-ui/layouts/shared'; +import { Logo } from '@/components/logo'; +import { appName, gitConfig } from './shared'; + +export function baseOptions(): BaseLayoutProps { + return { + nav: { + // JSX supported + title: <Logo name={appName} />, + }, + githubUrl: `https://github.com/${gitConfig.user}/${gitConfig.repo}`, + }; +} diff --git a/docs/src/lib/shared.ts b/docs/src/lib/shared.ts new file mode 100644 index 0000000..ac1fa5c --- /dev/null +++ b/docs/src/lib/shared.ts @@ -0,0 +1,18 @@ +// The static export is served from a subpath on GitHub Pages +// (algorithmiq.github.io/src-method), which Next.js applies to its own links and +// assets but not to URLs we fetch by hand; prefix those with `basePath`. +export const basePath = process.env.NEXT_PUBLIC_BASE_PATH ?? ''; + +// Absolute URL of the deployed site, for the Open Graph images. +export const siteUrl = `https://algorithmiq.github.io${basePath}`; + +export const appName = 'src_method'; +export const docsRoute = '/'; +export const docsImageRoute = '/og/docs'; +export const docsContentRoute = '/llms.mdx/docs'; + +export const gitConfig = { + user: 'Algorithmiq', + repo: 'src-method', + branch: 'main', +}; diff --git a/docs/src/lib/source.ts b/docs/src/lib/source.ts new file mode 100644 index 0000000..a00a3fc --- /dev/null +++ b/docs/src/lib/source.ts @@ -0,0 +1,37 @@ +import { docs } from 'collections/server'; +import { loader } from 'fumadocs-core/source'; +import { lucideIconsPlugin } from 'fumadocs-core/source/lucide-icons'; +import { docsContentRoute, docsImageRoute, docsRoute } from './shared'; + +// See https://fumadocs.dev/docs/headless/source-api for more info +export const source = loader({ + baseUrl: docsRoute, + source: docs.toFumadocsSource(), + plugins: [lucideIconsPlugin()], +}); + +export function getPageImage(page: (typeof source)['$inferPage']) { + const segments = [...page.slugs, 'image.png']; + + return { + segments, + url: `${docsImageRoute}/${segments.join('/')}`, + }; +} + +export function getPageMarkdownUrl(page: (typeof source)['$inferPage']) { + const segments = [...page.slugs, 'content.md']; + + return { + segments, + url: `${docsContentRoute}/${segments.join('/')}`, + }; +} + +export async function getLLMText(page: (typeof source)['$inferPage']) { + const processed = await page.data.getText('processed'); + + return `# ${page.data.title} (${page.url}) + +${processed}`; +} diff --git a/docs/stylesheets/code_select.css b/docs/stylesheets/code_select.css deleted file mode 100644 index 261023a..0000000 --- a/docs/stylesheets/code_select.css +++ /dev/null @@ -1,5 +0,0 @@ -.highlight .gp, -.highlight .go { - /* Generic.Prompt, Generic.Output */ - user-select: none; -} diff --git a/docs/stylesheets/extra.css b/docs/stylesheets/extra.css deleted file mode 100644 index 2117f39..0000000 --- a/docs/stylesheets/extra.css +++ /dev/null @@ -1,10 +0,0 @@ -[data-md-color-scheme="algorithmiq"] { - --md-primary-fg-color: #3b667d; - --md-accent-fg-color: #54b6b8; -} - -[data-md-color-scheme="slate"] { - --md-primary-fg-color: #3b667d; - --md-accent-fg-color: #54b6b8; - --md-hue: 210; -} diff --git a/docs/tsconfig.json b/docs/tsconfig.json new file mode 100644 index 0000000..4556765 --- /dev/null +++ b/docs/tsconfig.json @@ -0,0 +1,45 @@ +{ + "compilerOptions": { + "target": "ESNext", + "lib": [ + "dom", + "dom.iterable", + "esnext" + ], + "allowJs": true, + "skipLibCheck": true, + "strict": true, + "forceConsistentCasingInFileNames": true, + "noEmit": true, + "esModuleInterop": true, + "module": "esnext", + "moduleResolution": "bundler", + "resolveJsonModule": true, + "isolatedModules": true, + "jsx": "react-jsx", + "incremental": true, + "paths": { + "@/*": [ + "./src/*" + ], + "collections/*": [ + "./.source/*" + ] + }, + "plugins": [ + { + "name": "next" + } + ] + }, + "include": [ + "next-env.d.ts", + "**/*.ts", + "**/*.tsx", + ".next/types/**/*.ts", + ".next/dev/types/**/*.ts" + ], + "exclude": [ + "node_modules" + ] +} diff --git a/flake.nix b/flake.nix index cc7c8aa..27945b6 100644 --- a/flake.nix +++ b/flake.nix @@ -21,6 +21,8 @@ pkgs.uv pkgs.git pkgs.gh + # Builds the documentation site under docs/. + pkgs.nodejs_22 ]; env = { diff --git a/mkdocs.yml b/mkdocs.yml deleted file mode 100644 index cda7c5b..0000000 --- a/mkdocs.yml +++ /dev/null @@ -1,86 +0,0 @@ -site_name: src_method -repo_url: https://github.com/Algorithmiq/src-method - -watch: - - src/src_method -nav: - - Home: index.md - - 'Developer Guide': - - 'Versioning Scheme': developer-guide/versioning.md - - 'Managing Dependencies': developer-guide/dependencies.md - - 'Writing Tests': developer-guide/testing.md - - Code Reference: reference/ - -plugins: - - search - - mkdocs-jupyter: - include: ["docs/tutorials/*.ipynb"] - execute: true - allow_errors: false - include_requirejs: true - include_source: true - remove_tag_config: - remove_input_tags: - - remove_cell - - gen-files: - scripts: - - docs/gen_ref_pages.py - - literate-nav: - nav_file: SUMMARY.md - - section-index - - mkdocstrings: - handlers: - python: - paths: [src] - options: - docstring_section_style: spacy - show_submodules: false - heading_level: 3 - merge_init_into_class: true - show_category_heading: true - separate_signature: true - show_signature_annotations: true - inherited_members: true - import: - - https://qiskit.org/documentation/objects.inv - - https://numpy.org/doc/stable/objects.inv - - https://docs.python.org/3/objects.inv - - https://docs.scipy.org/doc/scipy/reference/objects.inv -theme: - name: material - font: - text: Open Sans - palette: - # Palette toggle for light mode - - scheme: algorithmiq - toggle: - icon: material/brightness-7 - name: Switch to dark mode - - # Palette toggle for dark mode - - scheme: slate - toggle: - icon: material/brightness-4 - name: Switch to light mode - icon: - repo: fontawesome/brands/github - logo: assets/algo_symbol.png - favicon: assets/algo_symbol.png -extra_css: - - stylesheets/extra.css - - stylesheets/code_select.css -markdown_extensions: - - smarty - - def_list - - admonition - - pymdownx.details - - toc: - permalink: "#" - - pymdownx.arithmatex: - generic: true - - pymdownx.superfences - - pymdownx.magiclink - - footnotes -extra_javascript: - - javascripts/config.js - - https://cdn.jsdelivr.net/npm/mathjax@3/es5/tex-mml-chtml.js diff --git a/pyproject.toml b/pyproject.toml index 161c7c7..ea2e7a9 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -86,14 +86,11 @@ interactive = [ "pylatexenc", ] docs = [ - 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