docs: fix residual doc issues from pyOpenSci review (#6, #11, #28, #31, #32)

While closing the pyOpenSci review issues, a handful of places were missed. This commit finishes the cleanup:

#6  README / docs/index.rst / docs/faq.rst no longer advertise OpenAlex and dblp as data sources - they were never wired into the code. Replaced with the sources that *are* actually queried (OpenAIRE/BASE, GitHub, Google Scholar).

#11 docs/api/pipeline.rst was still describing classes and methods that do not exist (Validator / Identifier / Completer / Formatter, set_source_priority, set_timeout, add_template_path, routing based on 'medical' vs 'CS' queries). Rewritten to match the real ParserModule / IdentifierModule / EnricherModule / FormatterModule surface and the actual confidence-based identification logic.

#28 README quick-start example used 'journal = arXiv preprint' inside an @inproceedings entry - exactly the symptom the issue reported. Fixed by using 'booktitle = Advances in Neural Information Processing Systems (NeurIPS)'. Same fix applied to docs/quick_start.rst.

#31/#32 APA and MLA renderers were removed, but several docs and docstrings still advertised them. Updated docs/output_formats.rst (rewritten BibTeX-only), docs/faq.rst, docs/quick_start.rst, docs/python_api.rst, docs/templates.rst, docs/index.rst and docstrings in core.py / formatter.py to only mention BibTeX. Users wanting APA/MLA are pointed at pandoc / citeproc-py.

No code behavior changed.

Author: Ang

CHANGELOG.md

@@ -7,8 +7,31 @@ The format is based on [Keep a Changelog](https://keepachangelog.com/), and this
 ## [Unreleased]
 
 ### Changed
+- Split monolithic ``pipeline.py`` (~3000 lines) into a proper
+  ``onecite/pipeline/`` package with one module per stage
+  (``parser.py`` / ``identifier.py`` / ``enricher.py`` /
+  ``formatter.py``) plus a ``_utils.py`` for shared helpers (#17).
+  Public imports (``from onecite.pipeline import IdentifierModule``)
+  and mocking targets (``patch("onecite.pipeline.requests.get", ...)``)
+  continue to work unchanged.
 - Unify CrossRef request and parsing methods in pipeline (#26)
 
+### Fixed
+- README no longer advertises OpenAlex and dblp as data sources — they
+  were never wired into the code (#6).
+- README quick-start example now shows ``booktitle`` (NeurIPS) instead
+  of ``journal = "arXiv preprint"`` for the ``@inproceedings`` sample
+  (#28).
+- ``docs/api/pipeline.rst`` rewritten to match the actual module
+  structure; removed references to classes and methods that never
+  existed (``Validator`` / ``Identifier`` / ``Completer`` / ``Formatter``,
+  ``set_source_priority``, ``set_timeout``, ``add_template_path``) (#11).
+- ``docs/output_formats.rst``, ``docs/faq.rst``, ``docs/quick_start.rst``,
+  ``docs/python_api.rst``, ``docs/templates.rst``, ``docs/index.rst`` and
+  docstrings in ``core.py`` / ``formatter.py`` no longer advertise
+  APA / MLA output — the renderers were removed and the CLI rejects
+  those values (#31, #32).
+
 ## [0.1.0] - 2025-02-09
 
 ### Added

README.md

@@ -78,9 +78,7 @@ OneCite solves this by accepting **any mix of identifiers and text queries** and
 
 [![CrossRef](https://img.shields.io/badge/CrossRef-B31B1B?style=for-the-badge&logo=crossref&logoColor=white)](https://www.crossref.org/)
 [![Semantic Scholar](https://img.shields.io/badge/Semantic-1857B6?style=for-the-badge&logo=semanticscholar&logoColor=white)](https://www.semanticscholar.org/)
-[![OpenAlex](https://img.shields.io/badge/OpenAlex-FF6B35?style=for-the-badge&logo=openalex&logoColor=white)](https://openalex.org/)
 [![PubMed](https://img.shields.io/badge/PubMed-326599?style=for-the-badge&logo=pubmed&logoColor=white)](https://pubmed.ncbi.nlm.nih.gov/)
-[![dblp](https://img.shields.io/badge/dblp-002B5B?style=for-the-badge&logo=dblp&logoColor=white)](https://dblp.org/)
 [![arXiv](https://img.shields.io/badge/𝒳_arXiv-B31B1B?style=for-the-badge)](https://arxiv.org/)
 [![DataCite](https://img.shields.io/badge/DataCite-00B4A0?style=for-the-badge&logo=datacite&logoColor=white)](https://datacite.org/)
 [![Zenodo](https://img.shields.io/badge/Zenodo-0A0E4A?style=for-the-badge&logo=zenodo&logoColor=white)](https://zenodo.org/)
@@ -150,7 +148,7 @@ Your `results.bib` file now contains entries of different types.
   title = "Attention Is All You Need",
   author = "Vaswani, Ashish and Shazeer, Noam and Parmar, Niki and Uszkoreit, Jakob and Jones, Llion and Gomez, Aidan N. and Kaiser, Lukasz and Polosukhin, Illia",
   year = 2017,
-  journal = "arXiv preprint",
+  booktitle = "Advances in Neural Information Processing Systems (NeurIPS)",
   url = "https://arxiv.org/abs/1706.03762",
 }
 # ... and 5 more entries ...