Both items surfaced by the 2026-05-07 arborist-vs-donto comparison report (/home/fox/Downloads/arborist_vs_donto.pdf). Ticket #000022 — adapter LossReport (PRD I9 analogue). Today wikitext to_base() and html_page _normalize_text drop <ref> tags, image/category wikilinks, HTML chrome, whitespace runs without recording any of it; only the canonicalization-version pin survives. Ticket proposes a sidecar adapter_loss_reports table (Option A) over Merkle-bound loss_root (B) or audit-chain entries (C), preserving arborist's "soft signals are sidecars" discipline. ~1.6% storage tax expected, matching concept_relations. Doc-only; no code in this commit. Federation doc-discoverability: PDF author concluded "federation exists in code but the public docs page returned 404" because the mesh page lives at /api/mesh.html and the concepts orientation never surfaces the topic. Adds a "Federation across peers" section to concepts.rst pointing at api/mesh, a :ref:\`federation\` anchor + context lead on api/mesh.rst, and a footer link in concepts.rst's "Where to go next." Sphinx build passes; api/mesh.html#federation deep link resolves. |
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| .. | ||
| _ext | ||
| _static | ||
| api | ||
| concepts.rst | ||
| conf.py | ||
| cookbook.rst | ||
| diagrams | ||
| index.rst | ||
| license.rst | ||
| Makefile | ||
| quickstart.rst | ||
| README.md | ||
| requirements.txt | ||
Arborist API Reference (Sphinx)
This directory contains Sphinx configuration to generate API documentation from docstrings.
Build
cd docs/_source
make html # Generate HTML (output: _build/html/)
make text # Generate text (output: _build/text/)
make clean # Remove build artifacts
Or directly:
sphinx-build -b html . _build/html
View
After building, open _build/html/index.html in a browser.
Structure
conf.py— Sphinx configurationindex.rst— Main table of contentsapi/— Module documentation (one .rst per module category)substrate.rst— Core data structures (merkle, document, wikitext)storage.rst— SQLite schema (store, ingest, evict)retrieval.rst— FTS5 search (search, sources, concepts)qa.rst— Q&A pipeline (runner, query, verify, evidence, etc.)distill.rst— Distillation (surface→core)mesh.rst— Federation (gossip-based sync)cli.rst— Command-line interface
What it replaces
This generated documentation replaces docs/modules.md (1200+ lines of static API reference). The docstrings in code are the source of truth; Sphinx extracts them automatically.
Adding new modules
- Add a docstring to the module (module-level docstring at the top of
module.py) - Add an
.rstfile inapi/that includes the module withautomoduledirective - Reference it in
index.rst - Rebuild with
make html
Theme
Uses furo theme (modern, responsive, search-enabled).
Autodoc directives
The .rst files use Sphinx automodule to extract:
- Module docstrings
- Class docstrings + members
- Function signatures + docstrings
- Source code links (
:viewcode:extension)
See Sphinx autodoc docs.