v1.7.0

MINOR release. Implements ROADMAP Themes 4 and 10. Adds a plugin
entry-point group so third parties can ship protocol packs without
forking core; bundles two launch packs (humanities, qualitative)
that break Research-OS out of its biology/clinical bias; lands a
stress runner + mock-model CI matrix + auto-generated public
reliability surface. No breaking changes — every existing tool,
protocol, and alias keeps working.

Added — Theme 4A: plugin system

• New entry-point group research_os.protocol_pack. External packs register via pyproject.toml and Research-OS auto-discovers them on server startup.
• src/research_os/plugins/pack_api.py — stable author surface: PackRegistration, PackTool, @register_tool decorator, captured_tools(__name__).
• src/research_os/plugins/loader.py — discovery + namespace validation + merge into core registries.
• Namespace conventions enforced by the loader: protocols <pack>/<category>/<name>, tools tool_<pack>_<name>, router entries <pack>/.... Collisions fail loudly.
• Errors are isolated per pack — a bad pack writes its traceback to workspace/logs/pack_errors.log and is skipped without blocking server startup or other packs.
• New tool sys_packs_installed — list installed packs (name, version, description, tool count, router entries, registration errors).
• Pack-aware protocol loader: <pack>/... ids resolve through each pack's protocols_dir; bare ids fall through to core then packs.
• Router-index merge: _load_index includes every pack's contributed router_entries at runtime.
• Two new preflight checks: Bundled packs discovered + Pack protocols load. Preflight: 17 → 19 checks.
• docs/PLUGIN_AUTHORING.md (new) — full guide for pack authors.

Added — Theme 4B: humanities pack (bundled)

• src/research_os_humanities/ — 8 protocols + 3 tools + domain detector + 8 router entries.
• Protocols: archival/archival_research, archival/source_provenance, textual/close_reading, textual/distant_reading, method/hermeneutic_method, method/digital_humanities_workflow, citation/citation_chains, output/scholarly_edition.
• Tools: tool_humanities_archive_lookup (Internet Archive / HathiTrust / DPLA / Europeana / Gallica / LoC query planner), tool_humanities_transcribe (OCR + correction template), tool_humanities_citation_chain (chain-of-custody for quotations).
• Domain detector: TEI/XML files + literary/theological/historical terminology + prose-only corpora.

Added — Theme 4C: qualitative pack (bundled)

• src/research_os_qualitative/ — 5 protocols + 2 tools + domain detector + 5 router entries. Extends (does not duplicate) the 6 qualitative protocols already in core.
• Protocols: coding/coding_scheme_iteration (open → axial → selective with per-round κ), validity/member_checking, method/grounded_theory_iteration, method/thematic_analysis_braun_clarke (six-phase parametrization + 2019 reflexive correction), output/qualitative_report_format (COREQ for interviews, SRQR for general qualitative).
• Tools: tool_qualitative_codebook_diff (versioned codebook diff + per-code Cohen's κ), tool_qualitative_quote_provenance (quote → participant + transcript + line registry).
• Domain detector: speaker-turn patterns, qualitative-tool artefacts (NVivo / Atlas.ti / MAXQDA / Dedoose), IRB references, small-N demographics.

Added — Theme 10: stress-test matrix

• src/research_os/testing/stress_runner.py — model-agnostic reference-project runner. Accepts any model_call(messages) → str callable; CI uses mock_model_call which replays canned responses from the project's manifest.
• 5 reference projects under tests/fixtures/projects/: biology_genomics_mini, humanities_ms_review, qualitative_interviews, quick_plot_throwaway, mid_pipeline_handoff. Each ships with a frozen inputs/ tree, manifest.yaml (expected protocols / gates / artifacts / budgets / canned responses), and cleanup.sh.
• New CI workflow .github/workflows/stress.yml — runs every reference project against the mock model on every PR, uploads per-project JSON results, regenerates docs/RELIABILITY.md nightly.
• docs/RELIABILITY.md (auto-generated) — public reliability surface. Per-project × per-model success rates, per-protocol breakdown, verbatim failure notes.

Added — extras

• pip install research-os[humanities] and pip install research-os[qualitative] reserved as no-op extras (packs ship bundled in this release; the extras stay stable for the future split into separate PyPI packages).

Added — tests

• 38 new tests under tests/unit/test_v170_plugins_packs_stress.py covering: namespace validation, decorator capture, bundled-pack discovery, pack tool dispatch, pack protocol loading, both domain detectors, manifest parsing, mock-model dispatch, all three primary reference projects, RELIABILITY.md rendering, and the two new preflight checks.

Bumped

• version 1.6.1 → 1.7.0 in pyproject.toml, src/research_os/__init__.py, CITATION.cff.
• All 114 core protocol YAMLs bumped 1.6.1 → 1.7.0 (consistency across the surface; bundled-pack protocols ship at 1.7.0 from day 1).
• _router_index.yaml version 11 → 12.
• Embeddings rebuilt (now 127 protocol docs + 180 tool docs).

Counts

• Tools surface: 174 → 180 (+5 pack tools, +1 sys_packs_installed).
• Protocols: 114 → 127 (+8 humanities, +5 qualitative).
• Preflight: 17 → 19 checks (all green).
• Pytest: 597 → 635 passes.

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