qwen-sci 0.2.2__py3-none-any.whl

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Files changed (549) hide show
  1. qwen_sci-0.2.2.dist-info/METADATA +492 -0
  2. qwen_sci-0.2.2.dist-info/RECORD +549 -0
  3. qwen_sci-0.2.2.dist-info/WHEEL +4 -0
  4. qwen_sci-0.2.2.dist-info/entry_points.txt +6 -0
  5. qwen_sci-0.2.2.dist-info/licenses/LICENSE +21 -0
  6. src/1.txt +1 -0
  7. src/__init__.py +1 -0
  8. src/__main__.py +5 -0
  9. src/agents/__init__.py +1 -0
  10. src/agents/experiment_design_agent/__init__.py +268 -0
  11. src/agents/experiment_design_agent/artifacts.py +747 -0
  12. src/agents/experiment_design_agent/cache.py +319 -0
  13. src/agents/experiment_design_agent/completeness.py +130 -0
  14. src/agents/experiment_design_agent/contracts.py +771 -0
  15. src/agents/experiment_design_agent/counterexample_analyzer.py +187 -0
  16. src/agents/experiment_design_agent/design_evidence_paper_screener.py +470 -0
  17. src/agents/experiment_design_agent/discipline_catalog.py +178 -0
  18. src/agents/experiment_design_agent/evidence_cards.py +338 -0
  19. src/agents/experiment_design_agent/evidence_planner.py +452 -0
  20. src/agents/experiment_design_agent/formal_reasoning_planner.py +884 -0
  21. src/agents/experiment_design_agent/fulltext_acquisition.py +863 -0
  22. src/agents/experiment_design_agent/idea_adapter.py +100 -0
  23. src/agents/experiment_design_agent/idea_intake.py +87 -0
  24. src/agents/experiment_design_agent/llm_json.py +328 -0
  25. src/agents/experiment_design_agent/orchestrator.py +1220 -0
  26. src/agents/experiment_design_agent/reasoning_context.py +183 -0
  27. src/agents/experiment_design_agent/reasoning_validation.py +546 -0
  28. src/agents/experiment_design_agent/run.py +481 -0
  29. src/agents/experiment_design_agent/run_logging.py +292 -0
  30. src/agents/experiment_design_agent/scope_gate.py +198 -0
  31. src/agents/experiment_design_agent/study_type_composer.py +1360 -0
  32. src/agents/experiment_design_agent/survey_evidence.py +1381 -0
  33. src/agents/experiment_design_agent/template_router.py +195 -0
  34. src/agents/experiment_design_agent/variable_claim_extractor.py +93 -0
  35. src/agents/idea_agent/__init__.py +1 -0
  36. src/agents/idea_agent/agent/__init__.py +6 -0
  37. src/agents/idea_agent/agent/artifacts.py +308 -0
  38. src/agents/idea_agent/agent/base.py +122 -0
  39. src/agents/idea_agent/agent/ligagent.py +488 -0
  40. src/agents/idea_agent/agent/mcts.py +2060 -0
  41. src/agents/idea_agent/agent/prompts/__init__.py +48 -0
  42. src/agents/idea_agent/agent/prompts/advanced_analysis.py +235 -0
  43. src/agents/idea_agent/agent/prompts/algorithm_alignment.py +55 -0
  44. src/agents/idea_agent/agent/prompts/algorithm_structuring.py +48 -0
  45. src/agents/idea_agent/agent/prompts/component_extraction.py +62 -0
  46. src/agents/idea_agent/agent/prompts/component_novelty_evaluation.py +54 -0
  47. src/agents/idea_agent/agent/prompts/experiment_findings_extraction.py +39 -0
  48. src/agents/idea_agent/agent/prompts/idea_fusion.py +295 -0
  49. src/agents/idea_agent/agent/prompts/idea_introduction.py +30 -0
  50. src/agents/idea_agent/agent/prompts/idea_result_alignment.py +39 -0
  51. src/agents/idea_agent/agent/prompts/input_interpreter.py +52 -0
  52. src/agents/idea_agent/agent/prompts/keynote_ops.py +78 -0
  53. src/agents/idea_agent/agent/prompts/mcts_evaluation.py +235 -0
  54. src/agents/idea_agent/agent/prompts/mcts_generation.py +140 -0
  55. src/agents/idea_agent/agent/prompts/mechanism_commit_query.py +99 -0
  56. src/agents/idea_agent/agent/prompts/memory_selection.py +0 -0
  57. src/agents/idea_agent/agent/prompts/prompt_modes.py +16 -0
  58. src/agents/idea_agent/agent/prompts/rag_query.py +34 -0
  59. src/agents/idea_agent/agent/prompts/re_analysis_replan.py +48 -0
  60. src/agents/idea_agent/agent/prompts/reference_grounding.py +34 -0
  61. src/agents/idea_agent/agent/prompts/root_domain_classification.py +32 -0
  62. src/agents/idea_agent/agent/prompts/scientific_debate.py +88 -0
  63. src/agents/idea_agent/agent/prompts/scientific_materialization.py +45 -0
  64. src/agents/idea_agent/agent/prompts/skill_instantiation.py +193 -0
  65. src/agents/idea_agent/agent/prompts/theory_transfer_query.py +93 -0
  66. src/agents/idea_agent/agent/prompts/topic_background.py +15 -0
  67. src/agents/idea_agent/agent/skills/DEFAULT_SKILL_TEMPLATES.json +263 -0
  68. src/agents/idea_agent/agent/skills/edit_operator_skills/alternative-path-contrast/SKILL.md +40 -0
  69. src/agents/idea_agent/agent/skills/edit_operator_skills/alternative-path-contrast/references/contrast_patterns.md +22 -0
  70. src/agents/idea_agent/agent/skills/edit_operator_skills/feedback-closed-loop/SKILL.md +40 -0
  71. src/agents/idea_agent/agent/skills/edit_operator_skills/feedback-closed-loop/references/mechanism_cards.md +24 -0
  72. src/agents/idea_agent/agent/skills/edit_operator_skills/hierarchical-decomposition/SKILL.md +39 -0
  73. src/agents/idea_agent/agent/skills/edit_operator_skills/hierarchical-decomposition/references/hierarchy_patterns.md +22 -0
  74. src/agents/idea_agent/agent/skills/edit_operator_skills/mechanism-commit-innovation/SKILL.md +39 -0
  75. src/agents/idea_agent/agent/skills/edit_operator_skills/mechanism-commit-innovation/references/mechanism_commit_patterns.md +24 -0
  76. src/agents/idea_agent/agent/skills/edit_operator_skills/multi-scale-coordinator/SKILL.md +39 -0
  77. src/agents/idea_agent/agent/skills/edit_operator_skills/multi-scale-coordinator/references/coordination_patterns.md +22 -0
  78. src/agents/idea_agent/agent/skills/edit_operator_skills/speculative-execution-with-repair/SKILL.md +41 -0
  79. src/agents/idea_agent/agent/skills/edit_operator_skills/speculative-execution-with-repair/references/speculation_patterns.md +22 -0
  80. src/agents/idea_agent/agent/skills/edit_operator_skills/surgical-modularity/SKILL.md +39 -0
  81. src/agents/idea_agent/agent/skills/edit_operator_skills/surgical-modularity/references/modularity_patterns.md +22 -0
  82. src/agents/idea_agent/agent/skills/edit_operator_skills/theory-transfer-injection/SKILL.md +40 -0
  83. src/agents/idea_agent/agent/skills/edit_operator_skills/theory-transfer-injection/references/transfer_patterns.md +24 -0
  84. src/agents/idea_agent/example/idea_result.json +900 -0
  85. src/agents/idea_agent/run.py +276 -0
  86. src/agents/idea_agent/tests/test_advanced_analysis_contract.py +90 -0
  87. src/agents/idea_agent/tests/test_gap_hypothesis_bridge.py +166 -0
  88. src/agents/idea_agent/tests/test_idea_debate.py +480 -0
  89. src/agents/idea_agent/tests/test_idea_result_v5.py +99 -0
  90. src/agents/idea_agent/tests/test_idea_synthesis.py +92 -0
  91. src/agents/idea_agent/tests/test_mature_idea_sources.py +27 -0
  92. src/agents/idea_agent/tests/test_multimodal_idea_integration.py +386 -0
  93. src/agents/idea_agent/tests/test_profile_materialization_and_scoring.py +219 -0
  94. src/agents/idea_agent/tests/test_profile_native_skill_rendering.py +122 -0
  95. src/agents/idea_agent/tests/test_result_persistence.py +183 -0
  96. src/agents/idea_agent/tests/test_scientific_intervention_profiles.py +241 -0
  97. src/agents/idea_agent/tests/test_scientific_rubric_and_prompts.py +559 -0
  98. src/agents/idea_agent/tests/test_strict_json_object_responses.py +48 -0
  99. src/agents/idea_agent/utils/core/__init__.py +1 -0
  100. src/agents/idea_agent/utils/core/ablation_inputs.py +60 -0
  101. src/agents/idea_agent/utils/core/chat_errors.py +95 -0
  102. src/agents/idea_agent/utils/core/chat_router.py +130 -0
  103. src/agents/idea_agent/utils/core/chat_transport.py +188 -0
  104. src/agents/idea_agent/utils/core/config_loader.py +166 -0
  105. src/agents/idea_agent/utils/core/json_utils.py +28 -0
  106. src/agents/idea_agent/utils/core/logger.py +287 -0
  107. src/agents/idea_agent/utils/core/progress.py +58 -0
  108. src/agents/idea_agent/utils/core/response_parsing.py +57 -0
  109. src/agents/idea_agent/utils/core/run_inputs.py +198 -0
  110. src/agents/idea_agent/utils/mcts/__init__.py +1 -0
  111. src/agents/idea_agent/utils/mcts/component_novelty.py +342 -0
  112. src/agents/idea_agent/utils/mcts/defect_registry.py +302 -0
  113. src/agents/idea_agent/utils/mcts/idea_routes.py +61 -0
  114. src/agents/idea_agent/utils/mcts/idea_taste_presets.py +312 -0
  115. src/agents/idea_agent/utils/mcts/mcts_helpers.py +738 -0
  116. src/agents/idea_agent/utils/mcts/mcts_runtime.py +3000 -0
  117. src/agents/idea_agent/utils/mcts/scientific_intervention_ontology.py +1561 -0
  118. src/agents/idea_agent/utils/mcts/scientific_rubric.py +211 -0
  119. src/agents/idea_agent/utils/mcts/skill_parsing.py +92 -0
  120. src/agents/idea_agent/utils/papers/__init__.py +1 -0
  121. src/agents/idea_agent/utils/papers/paper_graph_vector_store.py +499 -0
  122. src/agents/idea_agent/utils/papers/paper_repository.py +372 -0
  123. src/agents/idea_agent/utils/prompting/__init__.py +1 -0
  124. src/agents/idea_agent/utils/prompting/prompt_views.py +637 -0
  125. src/agents/idea_agent/utils/workflow/__init__.py +1 -0
  126. src/agents/idea_agent/utils/workflow/advanced_analysis_contract.py +244 -0
  127. src/agents/idea_agent/utils/workflow/gap_hypothesis_bridge.py +461 -0
  128. src/agents/idea_agent/utils/workflow/idea_contract.py +426 -0
  129. src/agents/idea_agent/utils/workflow/idea_debate.py +1238 -0
  130. src/agents/idea_agent/utils/workflow/idea_diversity.py +163 -0
  131. src/agents/idea_agent/utils/workflow/idea_fusion.py +889 -0
  132. src/agents/idea_agent/utils/workflow/idea_helpers.py +478 -0
  133. src/agents/idea_agent/utils/workflow/idea_portfolio.py +422 -0
  134. src/agents/idea_agent/utils/workflow/idea_synthesis.py +482 -0
  135. src/agents/idea_agent/utils/workflow/ligagent_flow.py +581 -0
  136. src/agents/idea_agent/utils/workflow/ligagent_handlers.py +1836 -0
  137. src/agents/idea_agent/utils/workflow/ligagent_helpers.py +1331 -0
  138. src/agents/idea_agent/utils/workflow/ligagent_utils.py +322 -0
  139. src/agents/idea_agent/utils/workflow/mature_idea_sources.py +648 -0
  140. src/agents/idea_agent/utils/workflow/multimodal_data_anchoring.py +578 -0
  141. src/agents/idea_agent/utils/workflow/result_persistence.py +774 -0
  142. src/agents/idea_agent/utils/workflow/stage_contract.py +76 -0
  143. src/agents/idea_agent/utils/workflow/workflow_runtime.py +288 -0
  144. src/agents/research_plan_author/__init__.py +50 -0
  145. src/agents/research_plan_author/artifacts.py +270 -0
  146. src/agents/research_plan_author/authoring_blueprint.py +1246 -0
  147. src/agents/research_plan_author/bibtex_renderer.py +252 -0
  148. src/agents/research_plan_author/contract_repair.py +131 -0
  149. src/agents/research_plan_author/contracts.py +745 -0
  150. src/agents/research_plan_author/cross_section_editor.py +232 -0
  151. src/agents/research_plan_author/document_quality.py +987 -0
  152. src/agents/research_plan_author/idea_evolution.py +223 -0
  153. src/agents/research_plan_author/input_loader.py +76 -0
  154. src/agents/research_plan_author/latex_compiler.py +260 -0
  155. src/agents/research_plan_author/latex_safety.py +159 -0
  156. src/agents/research_plan_author/llm_json.py +74 -0
  157. src/agents/research_plan_author/markdown_renderer.py +275 -0
  158. src/agents/research_plan_author/pdf_validator.py +149 -0
  159. src/agents/research_plan_author/render.py +166 -0
  160. src/agents/research_plan_author/render_artifacts.py +187 -0
  161. src/agents/research_plan_author/run.py +765 -0
  162. src/agents/research_plan_author/run_logging.py +209 -0
  163. src/agents/research_plan_author/section_cache.py +184 -0
  164. src/agents/research_plan_author/section_composer.py +1764 -0
  165. src/agents/research_plan_author/section_router.py +209 -0
  166. src/agents/research_plan_author/semantic_validator.py +254 -0
  167. src/agents/research_plan_author/source_bundle.py +46 -0
  168. src/agents/research_plan_author/source_registry.py +208 -0
  169. src/agents/research_plan_author/survey_source_loader.py +137 -0
  170. src/agents/research_plan_author/template_adapter.py +173 -0
  171. src/agents/research_plan_author/template_profile.py +204 -0
  172. src/agents/research_plan_author/tex_renderer.py +496 -0
  173. src/agents/research_plan_author/theory_presentation.py +134 -0
  174. src/agents/research_plan_author/theory_spine.py +703 -0
  175. src/agents/survey_agent/Dockerfile +54 -0
  176. src/agents/survey_agent/README.md +350 -0
  177. src/agents/survey_agent/config/deep_survey.yaml +217 -0
  178. src/agents/survey_agent/config/deep_survey_batch.yaml +176 -0
  179. src/agents/survey_agent/config/deep_survey_fast.yaml +183 -0
  180. src/agents/survey_agent/config/evaluate_baseline.yaml +197 -0
  181. src/agents/survey_agent/config/outcomeRAG.yaml +159 -0
  182. src/agents/survey_agent/env_report.md +348 -0
  183. src/agents/survey_agent/modules/__init__.py +0 -0
  184. src/agents/survey_agent/modules/code_collector.py +2194 -0
  185. src/agents/survey_agent/modules/code_report_generator.py +1282 -0
  186. src/agents/survey_agent/modules/data_manager.py +1713 -0
  187. src/agents/survey_agent/modules/database.py +167 -0
  188. src/agents/survey_agent/modules/fulltext_download_cache.py +462 -0
  189. src/agents/survey_agent/modules/fulltext_http.py +134 -0
  190. src/agents/survey_agent/modules/fulltext_resolution.py +749 -0
  191. src/agents/survey_agent/modules/judge.py +434 -0
  192. src/agents/survey_agent/modules/outcome_RAG.py +236 -0
  193. src/agents/survey_agent/modules/paper_graph_retriever.py +1075 -0
  194. src/agents/survey_agent/modules/pe.py +1729 -0
  195. src/agents/survey_agent/modules/pseudo_creator.py +782 -0
  196. src/agents/survey_agent/modules/pseudo_reviser.py +537 -0
  197. src/agents/survey_agent/modules/refine_agent.py +1952 -0
  198. src/agents/survey_agent/modules/survey_generator.py +5691 -0
  199. src/agents/survey_agent/modules/survey_visualizer.py +1817 -0
  200. src/agents/survey_agent/modules/visual_prompts.py +327 -0
  201. src/agents/survey_agent/modules/work_analyzer.py +2750 -0
  202. src/agents/survey_agent/modules/work_collector.py +5649 -0
  203. src/agents/survey_agent/scripts/baseline_evaluation.py +411 -0
  204. src/agents/survey_agent/scripts/run_deep_survey.py +224 -0
  205. src/agents/survey_agent/scripts/run_deep_survey_adapter.py +407 -0
  206. src/agents/survey_agent/scripts/run_deep_survey_adapter_with_input.py +409 -0
  207. src/agents/survey_agent/scripts/run_deep_survey_batch.py +228 -0
  208. src/agents/survey_agent/scripts/run_deep_survey_batch_arg.py +243 -0
  209. src/agents/survey_agent/scripts/run_deep_survey_batch_settings.py +218 -0
  210. src/agents/survey_agent/scripts/run_keynotes_gen.py +128 -0
  211. src/agents/survey_agent/scripts/run_work_clusters.py +140 -0
  212. src/agents/survey_agent/utils/__init__.py +0 -0
  213. src/agents/survey_agent/utils/ablation_utils.py +317 -0
  214. src/agents/survey_agent/utils/api_call.py +2518 -0
  215. src/agents/survey_agent/utils/chat_utils.py +82 -0
  216. src/agents/survey_agent/utils/config_utils.py +70 -0
  217. src/agents/survey_agent/utils/convert_to_md.py +29 -0
  218. src/agents/survey_agent/utils/err_info.py +24 -0
  219. src/agents/survey_agent/utils/file_utils.py +176 -0
  220. src/agents/survey_agent/utils/gpu_utils.py +145 -0
  221. src/agents/survey_agent/utils/graph_visualizer.py +279 -0
  222. src/agents/survey_agent/utils/html_utils.py +181 -0
  223. src/agents/survey_agent/utils/latex_generator_intra_cluster.py +529 -0
  224. src/agents/survey_agent/utils/latex_generator_relation_table.py +193 -0
  225. src/agents/survey_agent/utils/mineru_section_packer.py +334 -0
  226. src/agents/survey_agent/utils/mineru_utils.py +396 -0
  227. src/agents/survey_agent/utils/paper.py +144 -0
  228. src/agents/survey_agent/utils/read_yaml.py +15 -0
  229. src/agents/survey_agent/utils/repo_utils.py +167 -0
  230. src/agents/survey_agent/utils/rich_logger.py +77 -0
  231. src/agents/survey_agent/utils/step2v2.py +874 -0
  232. src/agents/survey_agent/utils/step2v2_extractor.py +856 -0
  233. src/agents/survey_agent/utils/topic_survey_storage.py +309 -0
  234. src/agents/survey_agent/utils/utils.py +118 -0
  235. src/agents/survey_agent/utils/work.py +2 -0
  236. src/cli.py +1611 -0
  237. src/config/__init__.py +213 -0
  238. src/config/default.yaml +1122 -0
  239. src/harness/LICENSE +21 -0
  240. src/harness/VENDORED.md +14 -0
  241. src/harness/src/__init__.py +0 -0
  242. src/harness/src/openharness/__init__.py +0 -0
  243. src/harness/src/openharness/__main__.py +6 -0
  244. src/harness/src/openharness/api/__init__.py +21 -0
  245. src/harness/src/openharness/api/client.py +281 -0
  246. src/harness/src/openharness/api/codex_client.py +407 -0
  247. src/harness/src/openharness/api/copilot_auth.py +240 -0
  248. src/harness/src/openharness/api/copilot_client.py +134 -0
  249. src/harness/src/openharness/api/errors.py +19 -0
  250. src/harness/src/openharness/api/openai_client.py +577 -0
  251. src/harness/src/openharness/api/provider.py +186 -0
  252. src/harness/src/openharness/api/registry.py +437 -0
  253. src/harness/src/openharness/api/usage.py +17 -0
  254. src/harness/src/openharness/auth/__init__.py +29 -0
  255. src/harness/src/openharness/auth/external.py +610 -0
  256. src/harness/src/openharness/auth/flows.py +189 -0
  257. src/harness/src/openharness/auth/manager.py +482 -0
  258. src/harness/src/openharness/auth/storage.py +269 -0
  259. src/harness/src/openharness/autopilot/__init__.py +23 -0
  260. src/harness/src/openharness/autopilot/service.py +2239 -0
  261. src/harness/src/openharness/autopilot/types.py +91 -0
  262. src/harness/src/openharness/bridge/__init__.py +20 -0
  263. src/harness/src/openharness/bridge/manager.py +106 -0
  264. src/harness/src/openharness/bridge/session_runner.py +46 -0
  265. src/harness/src/openharness/bridge/types.py +37 -0
  266. src/harness/src/openharness/bridge/work_secret.py +41 -0
  267. src/harness/src/openharness/channels/UPSTREAM +6 -0
  268. src/harness/src/openharness/channels/__init__.py +22 -0
  269. src/harness/src/openharness/channels/adapter.py +131 -0
  270. src/harness/src/openharness/channels/bus/__init__.py +6 -0
  271. src/harness/src/openharness/channels/bus/events.py +38 -0
  272. src/harness/src/openharness/channels/bus/queue.py +44 -0
  273. src/harness/src/openharness/channels/impl/__init__.py +6 -0
  274. src/harness/src/openharness/channels/impl/base.py +141 -0
  275. src/harness/src/openharness/channels/impl/dingtalk.py +445 -0
  276. src/harness/src/openharness/channels/impl/discord.py +311 -0
  277. src/harness/src/openharness/channels/impl/email.py +410 -0
  278. src/harness/src/openharness/channels/impl/feishu.py +1342 -0
  279. src/harness/src/openharness/channels/impl/manager.py +257 -0
  280. src/harness/src/openharness/channels/impl/matrix.py +700 -0
  281. src/harness/src/openharness/channels/impl/mochat.py +897 -0
  282. src/harness/src/openharness/channels/impl/qq.py +141 -0
  283. src/harness/src/openharness/channels/impl/slack.py +284 -0
  284. src/harness/src/openharness/channels/impl/telegram.py +525 -0
  285. src/harness/src/openharness/channels/impl/whatsapp.py +159 -0
  286. src/harness/src/openharness/cli.py +2551 -0
  287. src/harness/src/openharness/commands/__init__.py +21 -0
  288. src/harness/src/openharness/commands/registry.py +2783 -0
  289. src/harness/src/openharness/config/__init__.py +34 -0
  290. src/harness/src/openharness/config/paths.py +160 -0
  291. src/harness/src/openharness/config/schema.py +119 -0
  292. src/harness/src/openharness/config/settings.py +1104 -0
  293. src/harness/src/openharness/coordinator/__init__.py +12 -0
  294. src/harness/src/openharness/coordinator/agent_definitions.py +975 -0
  295. src/harness/src/openharness/coordinator/coordinator_mode.py +520 -0
  296. src/harness/src/openharness/engine/__init__.py +80 -0
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  304. src/harness/src/openharness/hooks/executor.py +242 -0
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  308. src/harness/src/openharness/hooks/types.py +38 -0
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  460. src/harness/src/openharness/ui/backend_host.py +941 -0
  461. src/harness/src/openharness/ui/coordinator_drain.py +198 -0
  462. src/harness/src/openharness/ui/input.py +32 -0
  463. src/harness/src/openharness/ui/output.py +265 -0
  464. src/harness/src/openharness/ui/permission_dialog.py +14 -0
  465. src/harness/src/openharness/ui/protocol.py +247 -0
  466. src/harness/src/openharness/ui/react_launcher.py +179 -0
  467. src/harness/src/openharness/ui/runtime.py +799 -0
  468. src/harness/src/openharness/ui/textual_app.py +495 -0
  469. src/harness/src/openharness/utils/__init__.py +0 -0
  470. src/harness/src/openharness/utils/file_lock.py +86 -0
  471. src/harness/src/openharness/utils/fs.py +98 -0
  472. src/harness/src/openharness/utils/helpers.py +77 -0
  473. src/harness/src/openharness/utils/network_guard.py +340 -0
  474. src/harness/src/openharness/utils/shell.py +147 -0
  475. src/harness/src/openharness/vim/__init__.py +5 -0
  476. src/harness/src/openharness/vim/transitions.py +8 -0
  477. src/harness/src/openharness/voice/__init__.py +7 -0
  478. src/harness/src/openharness/voice/keyterms.py +10 -0
  479. src/harness/src/openharness/voice/stream_stt.py +8 -0
  480. src/harness/src/openharness/voice/voice_mode.py +44 -0
  481. src/llm/__init__.py +29 -0
  482. src/llm/image_generation.py +402 -0
  483. src/llm/provider_registry.py +419 -0
  484. src/llm/runtime_env.py +64 -0
  485. src/llm/structured_output.py +131 -0
  486. src/llm/vision.py +198 -0
  487. src/memory/__init__.py +2 -0
  488. src/memory/api/__init__.py +1 -0
  489. src/memory/api/base_memory_system_api.py +98 -0
  490. src/memory/api/base_symbolic_memory_system_api.py +190 -0
  491. src/memory/api/base_vector_memory_system_api.py +116 -0
  492. src/memory/api/faiss_memory_system_api.py +228 -0
  493. src/memory/api/slot_process_api.py +827 -0
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  496. src/memory/memory_system/component_taxonomy.py +430 -0
  497. src/memory/memory_system/llm.py +437 -0
  498. src/memory/memory_system/models.py +168 -0
  499. src/memory/memory_system/user_prompt.py +418 -0
  500. src/memory/memory_system/utils.py +282 -0
  501. src/memory/memory_system/vectorstore.py +311 -0
  502. src/memory/memory_system/working_slot.py +99 -0
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  506. src/pipeline/evidence_coverage_ledger.py +1150 -0
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  510. src/pipeline/multimodal_evidence/capabilities.py +107 -0
  511. src/pipeline/multimodal_evidence/claims.py +135 -0
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  513. src/pipeline/multimodal_evidence/data_sh_compiler.py +505 -0
  514. src/pipeline/multimodal_evidence/handoff_binding.py +135 -0
  515. src/pipeline/multimodal_evidence/manifest.py +254 -0
  516. src/pipeline/multimodal_evidence/native_analysis.py +479 -0
  517. src/pipeline/multimodal_evidence/perception.py +277 -0
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  519. src/pipeline/multimodal_evidence/rendering.py +120 -0
  520. src/pipeline/multimodal_evidence/safety.py +42 -0
  521. src/pipeline/multimodal_evidence/sampling.py +69 -0
  522. src/pipeline/multimodal_evidence/service.py +148 -0
  523. src/pipeline/multimodal_evidence/survey_integration.py +460 -0
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  530. src/pipeline/run_loop.py +862 -0
  531. src/pipeline/science_events.py +30 -0
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  533. src/pipeline/science_run.py +918 -0
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  535. src/pipeline/science_workflow.py +807 -0
  536. src/pipeline/sh_cluster_projection.py +306 -0
  537. src/pipeline/sh_graph_provenance.py +648 -0
  538. src/pipeline/subhypothesis_decomposition.py +392 -0
  539. src/pipeline/subhypothesis_evidence.py +856 -0
  540. src/pipeline/survey_evidence_plan.py +858 -0
  541. src/pipeline/survey_gap_adjudication.py +647 -0
  542. src/pipeline/survey_gap_candidates.py +840 -0
  543. src/pipeline/survey_gap_ledger.py +683 -0
  544. src/pipeline/survey_gap_triage.py +401 -0
  545. src/pipeline/survey_handoff_persistence.py +481 -0
  546. src/pipeline/survey_handoff_projection.py +457 -0
  547. src/pipeline/survey_idea_handoff.py +1112 -0
  548. src/pipeline/survey_idea_loader.py +289 -0
  549. src/research_run_ids.py +11 -0
@@ -0,0 +1,730 @@
1
+ """Plugin discovery and loading."""
2
+
3
+ from __future__ import annotations
4
+
5
+ import importlib
6
+ import importlib.util
7
+ import json
8
+ import logging
9
+ import os
10
+ import sys
11
+ from pathlib import Path
12
+ from typing import Any, Iterable
13
+
14
+ import yaml
15
+
16
+ from openharness.config.paths import get_config_dir
17
+ from openharness.coordinator.agent_definitions import (
18
+ AGENT_COLORS,
19
+ EFFORT_LEVELS,
20
+ ISOLATION_MODES,
21
+ MEMORY_SCOPES,
22
+ PERMISSION_MODES,
23
+ AgentDefinition,
24
+ _parse_agent_frontmatter,
25
+ _parse_positive_int,
26
+ _parse_str_list,
27
+ )
28
+ from openharness.plugins.schemas import PluginManifest
29
+ from openharness.plugins.types import LoadedPlugin, PluginCommandDefinition
30
+ from openharness.skills.loader import _parse_skill_metadata
31
+ from openharness.skills.types import SkillDefinition
32
+
33
+ logger = logging.getLogger(__name__)
34
+
35
+
36
+ def get_user_plugins_dir() -> Path:
37
+ """Return the user plugin directory."""
38
+ path = get_config_dir() / "plugins"
39
+ path.mkdir(parents=True, exist_ok=True)
40
+ return path
41
+
42
+
43
+ def get_project_plugins_dir(cwd: str | Path) -> Path:
44
+ """Return the project plugin directory."""
45
+ path = Path(cwd).resolve() / ".openharness" / "plugins"
46
+ path.mkdir(parents=True, exist_ok=True)
47
+ return path
48
+
49
+
50
+ def _find_manifest(plugin_dir: Path) -> Path | None:
51
+ """Find plugin.json in standard or .claude-plugin/ locations."""
52
+ for candidate in [
53
+ plugin_dir / "plugin.json",
54
+ plugin_dir / ".claude-plugin" / "plugin.json",
55
+ ]:
56
+ if candidate.exists():
57
+ return candidate
58
+ return None
59
+
60
+
61
+ def discover_plugin_paths(cwd: str | Path, extra_roots: Iterable[str | Path] | None = None) -> list[Path]:
62
+ """Find plugin directories from user and project locations."""
63
+ roots = [get_user_plugins_dir(), get_project_plugins_dir(cwd)]
64
+ if extra_roots:
65
+ for root in extra_roots:
66
+ path = Path(root).expanduser().resolve()
67
+ path.mkdir(parents=True, exist_ok=True)
68
+ roots.append(path)
69
+ paths: list[Path] = []
70
+ seen: set[Path] = set()
71
+ for root in roots:
72
+ if not root.exists():
73
+ continue
74
+ for path in sorted(root.iterdir()):
75
+ if path.is_dir() and _find_manifest(path) is not None and path not in seen:
76
+ seen.add(path)
77
+ paths.append(path)
78
+ return paths
79
+
80
+
81
+ def discover_plugin_paths_for_settings(
82
+ settings,
83
+ cwd: str | Path,
84
+ extra_roots: Iterable[str | Path] | None = None,
85
+ ) -> list[Path]:
86
+ """Find plugin directories that are permitted by the active settings."""
87
+ roots = [get_user_plugins_dir()]
88
+ if getattr(settings, "allow_project_plugins", False):
89
+ roots.append(get_project_plugins_dir(cwd))
90
+ if extra_roots:
91
+ for root in extra_roots:
92
+ path = Path(root).expanduser().resolve()
93
+ path.mkdir(parents=True, exist_ok=True)
94
+ roots.append(path)
95
+ paths: list[Path] = []
96
+ seen: set[Path] = set()
97
+ for root in roots:
98
+ if not root.exists():
99
+ continue
100
+ for path in sorted(root.iterdir()):
101
+ if path.is_dir() and _find_manifest(path) is not None and path not in seen:
102
+ seen.add(path)
103
+ paths.append(path)
104
+ return paths
105
+
106
+
107
+ def load_plugins(settings, cwd: str | Path, extra_roots: Iterable[str | Path] | None = None) -> list[LoadedPlugin]:
108
+ """Load plugins from disk."""
109
+ project_plugins_dir = get_project_plugins_dir(cwd)
110
+ if not getattr(settings, "allow_project_plugins", False) and any(
111
+ path.is_dir() and _find_manifest(path) is not None for path in sorted(project_plugins_dir.iterdir())
112
+ ):
113
+ logger.warning(
114
+ "Found project-local plugins in %s, but they are disabled by default. "
115
+ "Set allow_project_plugins=true if you trust this workspace.",
116
+ project_plugins_dir,
117
+ )
118
+ plugins: list[LoadedPlugin] = []
119
+ for path in discover_plugin_paths_for_settings(settings, cwd, extra_roots=extra_roots):
120
+ plugin = load_plugin(path, settings.enabled_plugins)
121
+ if plugin is not None:
122
+ plugins.append(plugin)
123
+ return plugins
124
+
125
+
126
+ def load_plugin(path: Path, enabled_plugins: dict[str, bool]) -> LoadedPlugin | None:
127
+ """Load one plugin directory."""
128
+ manifest_path = _find_manifest(path)
129
+ if manifest_path is None:
130
+ return None
131
+ try:
132
+ manifest = PluginManifest.model_validate_json(manifest_path.read_text(encoding="utf-8"))
133
+ except Exception as exc:
134
+ logger.debug("Failed to load plugin manifest from %s: %s", manifest_path, exc)
135
+ return None
136
+ enabled = enabled_plugins.get(manifest.name, manifest.enabled_by_default)
137
+
138
+ skills = _load_plugin_skills(path / manifest.skills_dir)
139
+ commands = _load_plugin_commands(path, manifest)
140
+ agents = _load_plugin_agents(path, manifest)
141
+ tools = _load_plugin_tools(path, manifest) if enabled else []
142
+ hooks = _load_plugin_hooks(path / manifest.hooks_file)
143
+ hooks_dir_file = path / "hooks" / "hooks.json"
144
+ if not hooks and hooks_dir_file.exists():
145
+ hooks = _load_plugin_hooks_structured(hooks_dir_file, path)
146
+
147
+ mcp = _load_plugin_mcp(path / manifest.mcp_file)
148
+ mcp_json = path / ".mcp.json"
149
+ if not mcp and mcp_json.exists():
150
+ mcp = _load_plugin_mcp(mcp_json)
151
+
152
+ return LoadedPlugin(
153
+ manifest=manifest,
154
+ path=path,
155
+ enabled=enabled,
156
+ skills=skills,
157
+ commands=commands,
158
+ agents=agents,
159
+ hooks=hooks,
160
+ mcp_servers=mcp,
161
+ tools=tools,
162
+ )
163
+
164
+
165
+ def _parse_frontmatter(content: str, path: Path) -> tuple[dict[str, Any], str]:
166
+ if not content.startswith("---\n"):
167
+ return {}, content
168
+ marker = "\n---\n"
169
+ end_index = content.find(marker, 4)
170
+ if end_index == -1:
171
+ return {}, content
172
+ raw_frontmatter = content[4:end_index]
173
+ body = content[end_index + len(marker):]
174
+ try:
175
+ parsed = yaml.safe_load(raw_frontmatter) or {}
176
+ except yaml.YAMLError:
177
+ logger.debug("Failed to parse frontmatter from %s", path, exc_info=True)
178
+ parsed = {}
179
+ if not isinstance(parsed, dict):
180
+ parsed = {}
181
+ return parsed, body.strip()
182
+
183
+
184
+ def _extract_description(frontmatter: dict[str, Any], body: str, *, fallback: str) -> str:
185
+ description = frontmatter.get("description")
186
+ if isinstance(description, str) and description.strip():
187
+ return description.strip()
188
+ for line in body.splitlines():
189
+ stripped = line.strip()
190
+ if not stripped:
191
+ continue
192
+ if stripped.startswith("#"):
193
+ stripped = stripped.lstrip("#").strip()
194
+ if stripped:
195
+ return stripped
196
+ return fallback
197
+
198
+
199
+ def _walk_plugin_markdown(
200
+ root: Path,
201
+ *,
202
+ stop_at_skill_dir: bool,
203
+ ) -> list[Path]:
204
+ if not root.exists():
205
+ return []
206
+ files: list[Path] = []
207
+ for current_root, dirnames, filenames in os.walk(root, followlinks=True):
208
+ current = Path(current_root)
209
+ skill_file = current / "SKILL.md"
210
+ if stop_at_skill_dir and skill_file.exists():
211
+ files.append(skill_file)
212
+ dirnames[:] = []
213
+ continue
214
+ for filename in sorted(filenames):
215
+ if filename.lower().endswith(".md"):
216
+ files.append(current / filename)
217
+ return sorted(files)
218
+
219
+
220
+ def _transform_command_files(files: list[Path]) -> list[Path]:
221
+ files_by_dir: dict[Path, list[Path]] = {}
222
+ for file_path in files:
223
+ files_by_dir.setdefault(file_path.parent, []).append(file_path)
224
+ result: list[Path] = []
225
+ for dir_path, dir_files in files_by_dir.items():
226
+ skill_files = [path for path in dir_files if path.name.lower() == "skill.md"]
227
+ if skill_files:
228
+ result.append(skill_files[0])
229
+ else:
230
+ result.extend(sorted(dir_files))
231
+ return sorted(result)
232
+
233
+
234
+ def _command_name_from_file(file_path: Path, base_dir: Path, plugin_name: str) -> str:
235
+ if file_path.name.lower() == "skill.md":
236
+ skill_dir = file_path.parent
237
+ parent_of_skill_dir = skill_dir.parent
238
+ command_base_name = skill_dir.name
239
+ relative_path = parent_of_skill_dir.relative_to(base_dir)
240
+ else:
241
+ command_base_name = file_path.stem
242
+ relative_path = file_path.parent.relative_to(base_dir)
243
+ namespace = ":".join(part for part in relative_path.parts if part and part != ".")
244
+ return (
245
+ f"{plugin_name}:{namespace}:{command_base_name}"
246
+ if namespace
247
+ else f"{plugin_name}:{command_base_name}"
248
+ )
249
+
250
+
251
+ def _load_plugin_skills(path: Path) -> list[SkillDefinition]:
252
+ """Load plugin skills using Claude Code's directory SKILL.md layout."""
253
+ if not path.exists():
254
+ return []
255
+ skills: list[SkillDefinition] = []
256
+ direct_skill = path / "SKILL.md"
257
+ if direct_skill.exists():
258
+ content = direct_skill.read_text(encoding="utf-8")
259
+ metadata = _parse_skill_metadata(path.name, content)
260
+ name = metadata["name"]
261
+ description = metadata["description"]
262
+ display_name = name if name != path.name else None
263
+ skills.append(
264
+ SkillDefinition(
265
+ name=name,
266
+ description=description,
267
+ content=content,
268
+ source="plugin",
269
+ path=str(direct_skill),
270
+ base_dir=str(path),
271
+ command_name=path.name,
272
+ display_name=display_name,
273
+ user_invocable=metadata["user_invocable"],
274
+ disable_model_invocation=metadata["disable_model_invocation"],
275
+ model=metadata["model"],
276
+ argument_hint=metadata["argument_hint"],
277
+ )
278
+ )
279
+ return skills
280
+ for child in sorted(path.iterdir()):
281
+ if not child.is_dir():
282
+ continue
283
+ skill_path = child / "SKILL.md"
284
+ if not skill_path.exists():
285
+ continue
286
+ content = skill_path.read_text(encoding="utf-8")
287
+ metadata = _parse_skill_metadata(child.name, content)
288
+ name = metadata["name"]
289
+ description = metadata["description"]
290
+ display_name = name if name != child.name else None
291
+ skills.append(
292
+ SkillDefinition(
293
+ name=name,
294
+ description=description,
295
+ content=content,
296
+ source="plugin",
297
+ path=str(skill_path),
298
+ base_dir=str(child),
299
+ command_name=child.name,
300
+ display_name=display_name,
301
+ user_invocable=metadata["user_invocable"],
302
+ disable_model_invocation=metadata["disable_model_invocation"],
303
+ model=metadata["model"],
304
+ argument_hint=metadata["argument_hint"],
305
+ )
306
+ )
307
+ return skills
308
+
309
+
310
+ def _coerce_path_list(raw: Any) -> list[str]:
311
+ if raw is None:
312
+ return []
313
+ if isinstance(raw, str):
314
+ return [raw]
315
+ if isinstance(raw, list):
316
+ return [str(item) for item in raw]
317
+ return []
318
+
319
+
320
+ def _load_plugin_commands(path: Path, manifest: PluginManifest) -> list[PluginCommandDefinition]:
321
+ commands: list[PluginCommandDefinition] = []
322
+ seen: set[Path] = set()
323
+ default_commands_dir = path / "commands"
324
+ commands.extend(
325
+ _load_commands_from_directory(
326
+ default_commands_dir,
327
+ plugin_name=manifest.name,
328
+ seen=seen,
329
+ )
330
+ )
331
+
332
+ manifest_commands = manifest.commands
333
+ if isinstance(manifest_commands, dict):
334
+ for command_name, metadata in manifest_commands.items():
335
+ if not isinstance(metadata, dict):
336
+ continue
337
+ source = metadata.get("source")
338
+ content = metadata.get("content")
339
+ if isinstance(source, str):
340
+ command_path = (path / source).resolve()
341
+ if command_path.is_dir():
342
+ commands.extend(
343
+ _load_commands_from_directory(
344
+ command_path,
345
+ plugin_name=manifest.name,
346
+ seen=seen,
347
+ )
348
+ )
349
+ continue
350
+ command = _load_single_command_file(
351
+ command_path,
352
+ command_name=f"{manifest.name}:{command_name}",
353
+ metadata_override=metadata,
354
+ seen=seen,
355
+ )
356
+ if command is not None:
357
+ commands.append(command)
358
+ elif isinstance(content, str):
359
+ description = str(metadata.get("description") or f"Plugin command from {manifest.name}").strip()
360
+ commands.append(
361
+ PluginCommandDefinition(
362
+ name=f"{manifest.name}:{command_name}",
363
+ description=description,
364
+ content=content.strip(),
365
+ source="plugin",
366
+ argument_hint=metadata.get("argumentHint"),
367
+ model=metadata.get("model"),
368
+ )
369
+ )
370
+ else:
371
+ for raw_path in _coerce_path_list(manifest_commands):
372
+ command_path = (path / raw_path).resolve()
373
+ if command_path.is_dir():
374
+ commands.extend(
375
+ _load_commands_from_directory(
376
+ command_path,
377
+ plugin_name=manifest.name,
378
+ seen=seen,
379
+ )
380
+ )
381
+ elif command_path.is_file() and command_path.suffix.lower() == ".md":
382
+ command = _load_single_command_file(
383
+ command_path,
384
+ command_name=f"{manifest.name}:{command_path.stem}",
385
+ metadata_override=None,
386
+ seen=seen,
387
+ )
388
+ if command is not None:
389
+ commands.append(command)
390
+ return commands
391
+
392
+
393
+ def _load_commands_from_directory(
394
+ directory: Path,
395
+ *,
396
+ plugin_name: str,
397
+ seen: set[Path],
398
+ ) -> list[PluginCommandDefinition]:
399
+ if not directory.exists():
400
+ return []
401
+ raw_files = _walk_plugin_markdown(directory, stop_at_skill_dir=True)
402
+ files = _transform_command_files(raw_files)
403
+ commands: list[PluginCommandDefinition] = []
404
+ for file_path in files:
405
+ command_name = _command_name_from_file(file_path, directory, plugin_name)
406
+ command = _load_single_command_file(
407
+ file_path,
408
+ command_name=command_name,
409
+ metadata_override=None,
410
+ seen=seen,
411
+ )
412
+ if command is not None:
413
+ if file_path.name.lower() == "skill.md":
414
+ command = PluginCommandDefinition(
415
+ **{
416
+ **command.__dict__,
417
+ "is_skill": True,
418
+ "base_dir": str(file_path.parent),
419
+ }
420
+ )
421
+ commands.append(command)
422
+ return commands
423
+
424
+
425
+ def _load_single_command_file(
426
+ file_path: Path,
427
+ *,
428
+ command_name: str,
429
+ metadata_override: dict[str, Any] | None,
430
+ seen: set[Path],
431
+ ) -> PluginCommandDefinition | None:
432
+ if not file_path.exists():
433
+ return None
434
+ resolved = file_path.resolve()
435
+ if resolved in seen:
436
+ return None
437
+ seen.add(resolved)
438
+ content = file_path.read_text(encoding="utf-8")
439
+ frontmatter, body = _parse_frontmatter(content, file_path)
440
+ if metadata_override:
441
+ frontmatter = {
442
+ **frontmatter,
443
+ **{
444
+ "description": metadata_override.get("description", frontmatter.get("description")),
445
+ "argument-hint": metadata_override.get("argumentHint", frontmatter.get("argument-hint")),
446
+ "model": metadata_override.get("model", frontmatter.get("model")),
447
+ "allowed-tools": metadata_override.get("allowedTools", frontmatter.get("allowed-tools")),
448
+ },
449
+ }
450
+ description = _extract_description(frontmatter, body, fallback=f"Plugin command from {command_name}")
451
+ display_name = frontmatter.get("name")
452
+ argument_hint = frontmatter.get("argument-hint")
453
+ when_to_use = frontmatter.get("when_to_use")
454
+ version = frontmatter.get("version")
455
+ model = frontmatter.get("model")
456
+ effort = frontmatter.get("effort")
457
+ disable_model_invocation = bool(frontmatter.get("disable-model-invocation", False))
458
+ user_invocable_raw = frontmatter.get("user-invocable")
459
+ user_invocable = True if user_invocable_raw is None else bool(user_invocable_raw)
460
+ return PluginCommandDefinition(
461
+ name=command_name,
462
+ description=description,
463
+ content=body,
464
+ path=str(file_path),
465
+ source="plugin",
466
+ base_dir=str(file_path.parent),
467
+ argument_hint=str(argument_hint) if isinstance(argument_hint, str) else None,
468
+ when_to_use=str(when_to_use) if isinstance(when_to_use, str) else None,
469
+ version=str(version) if isinstance(version, str) else None,
470
+ model=str(model) if isinstance(model, str) else None,
471
+ effort=effort if isinstance(effort, (str, int)) else None,
472
+ disable_model_invocation=disable_model_invocation,
473
+ user_invocable=user_invocable,
474
+ is_skill=file_path.name.lower() == "skill.md",
475
+ display_name=str(display_name) if isinstance(display_name, str) else None,
476
+ )
477
+
478
+
479
+ def _load_plugin_agents(path: Path, manifest: PluginManifest) -> list[AgentDefinition]:
480
+ agents: list[AgentDefinition] = []
481
+ seen: set[Path] = set()
482
+ default_agents_dir = path / "agents"
483
+ agents.extend(_load_agents_from_directory(default_agents_dir, plugin_name=manifest.name, seen=seen))
484
+ for raw_path in _coerce_path_list(manifest.agents):
485
+ agent_path = (path / raw_path).resolve()
486
+ if agent_path.is_dir():
487
+ agents.extend(_load_agents_from_directory(agent_path, plugin_name=manifest.name, seen=seen))
488
+ elif agent_path.is_file() and agent_path.suffix.lower() == ".md":
489
+ agent = _load_single_agent_file(agent_path, plugin_name=manifest.name, namespace=(), seen=seen)
490
+ if agent is not None:
491
+ agents.append(agent)
492
+ return agents
493
+
494
+
495
+ def _load_agents_from_directory(
496
+ directory: Path,
497
+ *,
498
+ plugin_name: str,
499
+ seen: set[Path],
500
+ ) -> list[AgentDefinition]:
501
+ if not directory.exists():
502
+ return []
503
+ agents: list[AgentDefinition] = []
504
+ for file_path in _walk_plugin_markdown(directory, stop_at_skill_dir=False):
505
+ namespace = file_path.relative_to(directory).parts[:-1]
506
+ agent = _load_single_agent_file(
507
+ file_path,
508
+ plugin_name=plugin_name,
509
+ namespace=namespace,
510
+ seen=seen,
511
+ )
512
+ if agent is not None:
513
+ agents.append(agent)
514
+ return agents
515
+
516
+
517
+ def _load_single_agent_file(
518
+ file_path: Path,
519
+ *,
520
+ plugin_name: str,
521
+ namespace: tuple[str, ...],
522
+ seen: set[Path],
523
+ ) -> AgentDefinition | None:
524
+ if not file_path.exists():
525
+ return None
526
+ resolved = file_path.resolve()
527
+ if resolved in seen:
528
+ return None
529
+ seen.add(resolved)
530
+ content = file_path.read_text(encoding="utf-8")
531
+ frontmatter, body = _parse_agent_frontmatter(content)
532
+
533
+ base_agent_name = str(frontmatter.get("name", "")).strip() or file_path.stem
534
+ agent_name = ":".join([plugin_name, *namespace, base_agent_name])
535
+ description = str(frontmatter.get("description", "")).strip() or f"Agent from {plugin_name} plugin"
536
+ description = description.replace("\\n", "\n")
537
+
538
+ tools = _parse_str_list(frontmatter.get("tools"))
539
+ disallowed_raw = frontmatter.get("disallowedTools", frontmatter.get("disallowed_tools"))
540
+ disallowed_tools = _parse_str_list(disallowed_raw)
541
+
542
+ model_raw = frontmatter.get("model")
543
+ model: str | None = None
544
+ if isinstance(model_raw, str) and model_raw.strip():
545
+ trimmed = model_raw.strip()
546
+ model = "inherit" if trimmed.lower() == "inherit" else trimmed
547
+
548
+ effort_raw = frontmatter.get("effort")
549
+ effort: str | int | None = None
550
+ if effort_raw is not None:
551
+ if isinstance(effort_raw, int):
552
+ effort = effort_raw if effort_raw > 0 else None
553
+ elif isinstance(effort_raw, str) and effort_raw in EFFORT_LEVELS:
554
+ effort = effort_raw
555
+
556
+ background_raw = frontmatter.get("background")
557
+ background = background_raw is True or background_raw == "true"
558
+ skills = _parse_str_list(frontmatter.get("skills")) or []
559
+
560
+ color_raw = frontmatter.get("color")
561
+ color = color_raw if isinstance(color_raw, str) and color_raw in AGENT_COLORS else None
562
+
563
+ memory_raw = frontmatter.get("memory")
564
+ memory = memory_raw if isinstance(memory_raw, str) and memory_raw in MEMORY_SCOPES else None
565
+
566
+ isolation_raw = frontmatter.get("isolation")
567
+ isolation = isolation_raw if isinstance(isolation_raw, str) and isolation_raw in ISOLATION_MODES else None
568
+
569
+ max_turns_raw = frontmatter.get("maxTurns", frontmatter.get("max_turns"))
570
+ max_turns = _parse_positive_int(max_turns_raw)
571
+
572
+ permission_raw = frontmatter.get("permissionMode", frontmatter.get("permission_mode"))
573
+ permission_mode = (
574
+ permission_raw if isinstance(permission_raw, str) and permission_raw in PERMISSION_MODES else None
575
+ )
576
+
577
+ initial_prompt_raw = frontmatter.get("initialPrompt", frontmatter.get("initial_prompt"))
578
+ initial_prompt = initial_prompt_raw.strip() if isinstance(initial_prompt_raw, str) and initial_prompt_raw.strip() else None
579
+
580
+ critical_raw = frontmatter.get("criticalSystemReminder", frontmatter.get("critical_system_reminder"))
581
+ critical_system_reminder = critical_raw.strip() if isinstance(critical_raw, str) and critical_raw.strip() else None
582
+
583
+ required_mcp_servers = _parse_str_list(
584
+ frontmatter.get("requiredMcpServers", frontmatter.get("required_mcp_servers"))
585
+ )
586
+
587
+ permissions: list[str] = []
588
+ raw_permissions = frontmatter.get("permissions", "")
589
+ if raw_permissions:
590
+ permissions = [p.strip() for p in str(raw_permissions).split(",") if p.strip()]
591
+
592
+ return AgentDefinition(
593
+ name=agent_name,
594
+ description=description,
595
+ system_prompt=body or None,
596
+ tools=tools,
597
+ disallowed_tools=disallowed_tools,
598
+ model=model,
599
+ effort=effort,
600
+ permission_mode=permission_mode,
601
+ max_turns=max_turns,
602
+ skills=skills,
603
+ mcp_servers=None,
604
+ hooks=None,
605
+ color=color,
606
+ background=background,
607
+ initial_prompt=initial_prompt,
608
+ memory=memory,
609
+ isolation=isolation,
610
+ omit_claude_md=False,
611
+ critical_system_reminder=critical_system_reminder,
612
+ required_mcp_servers=required_mcp_servers,
613
+ permissions=permissions,
614
+ filename=base_agent_name,
615
+ base_dir=str(file_path.parent),
616
+ subagent_type=str(frontmatter.get("subagent_type", agent_name)),
617
+ source="plugin",
618
+ )
619
+
620
+
621
+ def _load_plugin_hooks(path: Path) -> dict[str, list]:
622
+ """Load hooks from a flat hooks.json file."""
623
+ if not path.exists():
624
+ return {}
625
+ from openharness.hooks.schemas import (
626
+ AgentHookDefinition,
627
+ CommandHookDefinition,
628
+ HttpHookDefinition,
629
+ PromptHookDefinition,
630
+ )
631
+
632
+ raw = json.loads(path.read_text(encoding="utf-8"))
633
+ parsed: dict[str, list] = {}
634
+ for event, hooks in raw.items():
635
+ parsed[event] = []
636
+ for hook in hooks:
637
+ hook_type = hook.get("type")
638
+ if hook_type == "command":
639
+ parsed[event].append(CommandHookDefinition.model_validate(hook))
640
+ elif hook_type == "prompt":
641
+ parsed[event].append(PromptHookDefinition.model_validate(hook))
642
+ elif hook_type == "http":
643
+ parsed[event].append(HttpHookDefinition.model_validate(hook))
644
+ elif hook_type == "agent":
645
+ parsed[event].append(AgentHookDefinition.model_validate(hook))
646
+ return parsed
647
+
648
+
649
+ def _load_plugin_hooks_structured(path: Path, plugin_root: Path) -> dict[str, list]:
650
+ """Load hooks from structured hooks.json format."""
651
+ if not path.exists():
652
+ return {}
653
+ try:
654
+ raw = json.loads(path.read_text(encoding="utf-8"))
655
+ except (json.JSONDecodeError, OSError):
656
+ return {}
657
+ hooks_data = raw.get("hooks", raw)
658
+ if not isinstance(hooks_data, dict):
659
+ return {}
660
+ parsed: dict[str, list] = {}
661
+ for event, entries in hooks_data.items():
662
+ if not isinstance(entries, list):
663
+ continue
664
+ parsed[event] = []
665
+ for entry in entries:
666
+ hook_list = entry.get("hooks", [])
667
+ matcher = entry.get("matcher", "")
668
+ for hook in hook_list:
669
+ cmd = hook.get("command", "")
670
+ cmd = cmd.replace("${CLAUDE_PLUGIN_ROOT}", str(plugin_root))
671
+ parsed[event].append({
672
+ "type": hook.get("type", "command"),
673
+ "command": cmd,
674
+ "matcher": matcher,
675
+ "timeout": hook.get("timeout"),
676
+ })
677
+ return parsed
678
+
679
+
680
+ def _load_plugin_mcp(path: Path) -> dict[str, object]:
681
+ """Load MCP server configuration from a JSON file."""
682
+ if not path.exists():
683
+ return {}
684
+ from openharness.mcp.types import McpJsonConfig
685
+
686
+ raw = json.loads(path.read_text(encoding="utf-8"))
687
+ parsed = McpJsonConfig.model_validate(raw)
688
+ return parsed.mcpServers
689
+
690
+
691
+ def _load_plugin_tools(path: Path, manifest: PluginManifest) -> list:
692
+ """Discover and instantiate BaseTool subclasses from a plugin's tools/ directory."""
693
+ from openharness.tools.base import BaseTool
694
+
695
+ tools_dir = path / manifest.tools_dir
696
+ if not tools_dir.is_dir():
697
+ return []
698
+
699
+ tools: list[BaseTool] = []
700
+ for py_file in sorted(tools_dir.glob("*.py")):
701
+ if py_file.name.startswith("_"):
702
+ continue
703
+ module_name = f"_plugin_tools_{manifest.name}_{py_file.stem}"
704
+ try:
705
+ spec = importlib.util.spec_from_file_location(module_name, py_file)
706
+ if spec is None or spec.loader is None:
707
+ continue
708
+ module = importlib.util.module_from_spec(spec)
709
+ sys.modules[module_name] = module
710
+ spec.loader.exec_module(module)
711
+ except Exception:
712
+ logger.debug("Failed to load plugin tool module %s", py_file, exc_info=True)
713
+ continue
714
+
715
+ for attr_name in dir(module):
716
+ attr = getattr(module, attr_name, None)
717
+ if (
718
+ isinstance(attr, type)
719
+ and issubclass(attr, BaseTool)
720
+ and attr is not BaseTool
721
+ and hasattr(attr, "name")
722
+ and hasattr(attr, "description")
723
+ ):
724
+ try:
725
+ instance = attr()
726
+ tools.append(instance)
727
+ logger.debug("Loaded plugin tool: %s from %s", instance.name, py_file)
728
+ except Exception:
729
+ logger.debug("Failed to instantiate tool %s from %s", attr_name, py_file, exc_info=True)
730
+ return tools