Tarik Moussa
408e4886bb
fix(wiki): basic conflict detection in CompileReport
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Add _detect_conflicts() using adversative keyword heuristic (but,
however, in contrast, …) between chunks of different bibkeys; results
populate CompileReport.conflicts and appear in wiki/log.md.
Also add CompileReport.quarantined field (used by Fix 2).
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com >
2026-06-14 05:11:06 +02:00
Tarik Moussa
1df9be6563
feat(F-09): rich parsing — formula + figure extraction
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- codex/parsing/mathpix.py: pix2tex (local, CPU) primary + MathPix API
optional; bbox heuristic h>15px, math-char-count>5; singleton model cache
- codex/parsing/figures.py: pymupdf embedded-image extraction → PNG;
caption detection via proximity + "Figure/Fig./Abbildung" prefix
- codex/models.py: FormulaChunk + FigureChunk dataclasses (R-10/R-11)
- codex/ingest.py: --rich flag wires formula+figure extraction post-ingest
- codex/cli.py: search_app sub-typer (paper + formula subcommands),
--rich flag on ingest; wiki_app from F-12 preserved intact
- codex/config.py: mathpix_app_id/key, pix2tex_fallback, figures_dir
- infra/schema.sql: formulas + figures tables with HNSW pgvector indexes
- pyproject.toml: pymupdf>=1.24, pix2tex>=0.1.4
- tests/parsing/test_mathpix.py + test_figures.py: 31 tests (mock pix2tex
+ MathPix HTTP, real pymupdf on synthetic PDF)
Gate: 158 passed, ruff clean, mypy clean (20 files)
Requirements: R-10 R-11 R-12 R-13 R-14 → done
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com >
2026-06-14 01:16:24 +02:00
Tarik Moussa
d2f9141a5c
fix(cli): remove F-09 spillover from F-12 branch, keep only wiki group
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cli.py and config.py were accidentally contaminated with uncommitted F-09
changes (search_app restructure, rich ingest, mathpix/figures settings).
This restores both files to main-baseline + F-12-only additions:
- cli.py: wiki_app group (compile/list/check), restore @app.command search
- config.py: wiki_dir, wiki_llm_model, wiki_llm_url, wiki_top_k only
All 127 tests green, ruff+mypy clean.
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com >
2026-06-13 20:28:22 +02:00
Tarik Moussa
4d361fd8dc
feat(cli): wiki compile/list/check command group (F-12)
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Adds codex wiki compile/list/check Typer subgroup to cli.py.
Adds wiki_dir, wiki_llm_model, wiki_llm_url, wiki_top_k settings
to config.py (F-12 section only).
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com >
2026-06-13 20:22:55 +02:00
Tarik Moussa
c6a428d335
feat(parsing): LaTeX, Nougat, GROBID parsers with chunking
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Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com >
2026-06-04 23:30:58 +02:00
Tarik Moussa
e7ac7766a5
feat: initial project scaffold
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pyproject.toml (Python 3.12, uv), codex/ package (config, db, models),
infra/ (docker-compose + schema), .env.example, .gitignore, README.
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com >
2026-06-04 11:19:10 +02:00
