aiagents4pharma 1.26.0__tar.gz → 1.26.2__tar.gz

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  1. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/PKG-INFO +2 -1
  2. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/README.md +1 -0
  3. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2aiagents4pharma/agents/main_agent.py +6 -5
  4. aiagents4pharma-1.26.2/aiagents4pharma/talk2aiagents4pharma/configs/agents/main_agent/default.yaml +16 -0
  5. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma.egg-info/PKG-INFO +2 -1
  6. aiagents4pharma-1.26.2/release_version.txt +1 -0
  7. aiagents4pharma-1.26.0/aiagents4pharma/talk2aiagents4pharma/configs/agents/main_agent/default.yaml +0 -12
  8. aiagents4pharma-1.26.0/release_version.txt +0 -1
  9. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/LICENSE +0 -0
  10. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/__init__.py +0 -0
  11. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2aiagents4pharma/__init__.py +0 -0
  12. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2aiagents4pharma/agents/__init__.py +0 -0
  13. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2aiagents4pharma/configs/__init__.py +0 -0
  14. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2aiagents4pharma/configs/agents/__init__.py +0 -0
  15. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2aiagents4pharma/configs/config.yaml +0 -0
  16. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2aiagents4pharma/states/__init__.py +0 -0
  17. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2aiagents4pharma/states/state_talk2aiagents4pharma.py +0 -0
  18. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2aiagents4pharma/tests/__init__.py +0 -0
  19. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2aiagents4pharma/tests/test_main_agent.py +0 -0
  20. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/__init__.py +0 -0
  21. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/agents/__init__.py +0 -0
  22. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/agents/t2b_agent.py +0 -0
  23. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/api/__init__.py +0 -0
  24. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/api/kegg.py +0 -0
  25. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/api/ols.py +0 -0
  26. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/api/uniprot.py +0 -0
  27. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/configs/__init__.py +0 -0
  28. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/configs/agents/__init__.py +0 -0
  29. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/configs/agents/t2b_agent/__init__.py +0 -0
  30. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/configs/agents/t2b_agent/default.yaml +0 -0
  31. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/configs/config.yaml +0 -0
  32. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/configs/tools/__init__.py +0 -0
  33. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/configs/tools/ask_question/__init__.py +0 -0
  34. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/configs/tools/ask_question/default.yaml +0 -0
  35. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/configs/tools/custom_plotter/__init__.py +0 -0
  36. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/configs/tools/custom_plotter/default.yaml +0 -0
  37. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/configs/tools/get_annotation/__init__.py +0 -0
  38. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/configs/tools/get_annotation/default.yaml +0 -0
  39. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/models/__init__.py +0 -0
  40. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/models/basico_model.py +0 -0
  41. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/models/sys_bio_model.py +0 -0
  42. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/states/__init__.py +0 -0
  43. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/states/state_talk2biomodels.py +0 -0
  44. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tests/__init__.py +0 -0
  45. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tests/test_api.py +0 -0
  46. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tests/test_ask_question.py +0 -0
  47. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tests/test_basico_model.py +0 -0
  48. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tests/test_get_annotation.py +0 -0
  49. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tests/test_getmodelinfo.py +0 -0
  50. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tests/test_integration.py +0 -0
  51. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tests/test_load_biomodel.py +0 -0
  52. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tests/test_param_scan.py +0 -0
  53. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tests/test_query_article.py +0 -0
  54. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tests/test_search_models.py +0 -0
  55. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tests/test_simulate_model.py +0 -0
  56. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tests/test_steady_state.py +0 -0
  57. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tests/test_sys_bio_model.py +0 -0
  58. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tools/__init__.py +0 -0
  59. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tools/ask_question.py +0 -0
  60. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tools/custom_plotter.py +0 -0
  61. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tools/get_annotation.py +0 -0
  62. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tools/get_modelinfo.py +0 -0
  63. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tools/load_arguments.py +0 -0
  64. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tools/load_biomodel.py +0 -0
  65. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tools/parameter_scan.py +0 -0
  66. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tools/query_article.py +0 -0
  67. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tools/search_models.py +0 -0
  68. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tools/simulate_model.py +0 -0
  69. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tools/steady_state.py +0 -0
  70. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2biomodels/tools/utils.py +0 -0
  71. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2cells/__init__.py +0 -0
  72. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2cells/agents/__init__.py +0 -0
  73. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2cells/agents/scp_agent.py +0 -0
  74. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2cells/states/__init__.py +0 -0
  75. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2cells/states/state_talk2cells.py +0 -0
  76. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2cells/tests/scp_agent/test_scp_agent.py +0 -0
  77. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2cells/tools/__init__.py +0 -0
  78. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2cells/tools/scp_agent/__init__.py +0 -0
  79. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2cells/tools/scp_agent/display_studies.py +0 -0
  80. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2cells/tools/scp_agent/search_studies.py +0 -0
  81. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/__init__.py +0 -0
  82. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/agents/__init__.py +0 -0
  83. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/agents/t2kg_agent.py +0 -0
  84. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/configs/__init__.py +0 -0
  85. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/configs/agents/t2kg_agent/__init__.py +0 -0
  86. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/configs/agents/t2kg_agent/default.yaml +0 -0
  87. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/configs/app/__init__.py +0 -0
  88. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/configs/app/frontend/__init__.py +0 -0
  89. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/configs/app/frontend/default.yaml +0 -0
  90. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/configs/config.yaml +0 -0
  91. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/configs/tools/__init__.py +0 -0
  92. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/configs/tools/graphrag_reasoning/__init__.py +0 -0
  93. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/configs/tools/graphrag_reasoning/default.yaml +0 -0
  94. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/configs/tools/subgraph_extraction/__init__.py +0 -0
  95. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/configs/tools/subgraph_extraction/default.yaml +0 -0
  96. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/configs/tools/subgraph_summarization/__init__.py +0 -0
  97. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/configs/tools/subgraph_summarization/default.yaml +0 -0
  98. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/datasets/__init__.py +0 -0
  99. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/datasets/biobridge_primekg.py +0 -0
  100. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/datasets/dataset.py +0 -0
  101. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/datasets/primekg.py +0 -0
  102. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/datasets/starkqa_primekg.py +0 -0
  103. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/states/__init__.py +0 -0
  104. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/states/state_talk2knowledgegraphs.py +0 -0
  105. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/__init__.py +0 -0
  106. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/test_agents_t2kg_agent.py +0 -0
  107. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/test_datasets_biobridge_primekg.py +0 -0
  108. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/test_datasets_dataset.py +0 -0
  109. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/test_datasets_primekg.py +0 -0
  110. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/test_datasets_starkqa_primekg.py +0 -0
  111. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/test_tools_graphrag_reasoning.py +0 -0
  112. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/test_tools_subgraph_extraction.py +0 -0
  113. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/test_tools_subgraph_summarization.py +0 -0
  114. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_embeddings_embeddings.py +0 -0
  115. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_embeddings_huggingface.py +0 -0
  116. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_embeddings_nim_molmim.py +0 -0
  117. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_embeddings_ollama.py +0 -0
  118. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_embeddings_sentencetransformer.py +0 -0
  119. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_enrichments_enrichments.py +0 -0
  120. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_enrichments_ollama.py +0 -0
  121. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_enrichments_pubchem.py +0 -0
  122. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_kg_utils.py +0 -0
  123. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_pubchem_utils.py +0 -0
  124. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tools/__init__.py +0 -0
  125. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tools/graphrag_reasoning.py +0 -0
  126. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tools/load_arguments.py +0 -0
  127. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tools/subgraph_extraction.py +0 -0
  128. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/tools/subgraph_summarization.py +0 -0
  129. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/utils/__init__.py +0 -0
  130. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/utils/embeddings/__init__.py +0 -0
  131. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/utils/embeddings/embeddings.py +0 -0
  132. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/utils/embeddings/huggingface.py +0 -0
  133. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/utils/embeddings/nim_molmim.py +0 -0
  134. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/utils/embeddings/ollama.py +0 -0
  135. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/utils/embeddings/sentence_transformer.py +0 -0
  136. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/utils/enrichments/__init__.py +0 -0
  137. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/utils/enrichments/enrichments.py +0 -0
  138. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/utils/enrichments/ollama.py +0 -0
  139. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/utils/enrichments/pubchem_strings.py +0 -0
  140. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/utils/extractions/__init__.py +0 -0
  141. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/utils/extractions/pcst.py +0 -0
  142. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/utils/kg_utils.py +0 -0
  143. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2knowledgegraphs/utils/pubchem_utils.py +0 -0
  144. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/__init__.py +0 -0
  145. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/agents/__init__.py +0 -0
  146. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/agents/main_agent.py +0 -0
  147. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/agents/s2_agent.py +0 -0
  148. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/agents/zotero_agent.py +0 -0
  149. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/__init__.py +0 -0
  150. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/agents/__init__.py +0 -0
  151. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/__init__.py +0 -0
  152. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/main_agent/__init__.py +0 -0
  153. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/main_agent/default.yaml +0 -0
  154. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/s2_agent/__init__.py +0 -0
  155. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/s2_agent/default.yaml +0 -0
  156. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/zotero_agent/__init__.py +0 -0
  157. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/zotero_agent/default.yaml +0 -0
  158. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/app/__init__.py +0 -0
  159. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/app/frontend/__init__.py +0 -0
  160. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/app/frontend/default.yaml +0 -0
  161. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/config.yaml +0 -0
  162. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/tools/__init__.py +0 -0
  163. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/tools/multi_paper_recommendation/__init__.py +0 -0
  164. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/tools/multi_paper_recommendation/default.yaml +0 -0
  165. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/tools/retrieve_semantic_scholar_paper_id/__init__.py +0 -0
  166. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/tools/retrieve_semantic_scholar_paper_id/default.yaml +0 -0
  167. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/tools/search/__init__.py +0 -0
  168. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/tools/search/default.yaml +0 -0
  169. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/tools/single_paper_recommendation/__init__.py +0 -0
  170. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/tools/single_paper_recommendation/default.yaml +0 -0
  171. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/tools/zotero_read/__init__.py +0 -0
  172. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/configs/tools/zotero_read/default.yaml +0 -0
  173. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/state/__init__.py +0 -0
  174. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/state/state_talk2scholars.py +0 -0
  175. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tests/__init__.py +0 -0
  176. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tests/test_call_s2.py +0 -0
  177. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tests/test_call_zotero.py +0 -0
  178. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tests/test_llm_main_integration.py +0 -0
  179. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tests/test_main_agent.py +0 -0
  180. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tests/test_routing_logic.py +0 -0
  181. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tests/test_s2_agent.py +0 -0
  182. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tests/test_s2_tools.py +0 -0
  183. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tests/test_state.py +0 -0
  184. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tests/test_zotero_agent.py +0 -0
  185. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tests/test_zotero_tool.py +0 -0
  186. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tools/__init__.py +0 -0
  187. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tools/s2/__init__.py +0 -0
  188. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tools/s2/display_results.py +0 -0
  189. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tools/s2/multi_paper_rec.py +0 -0
  190. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tools/s2/query_results.py +0 -0
  191. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tools/s2/retrieve_semantic_scholar_paper_id.py +0 -0
  192. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tools/s2/search.py +0 -0
  193. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tools/s2/single_paper_rec.py +0 -0
  194. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tools/zotero/__init__.py +0 -0
  195. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma/talk2scholars/tools/zotero/zotero_read.py +0 -0
  196. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma.egg-info/SOURCES.txt +0 -0
  197. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma.egg-info/dependency_links.txt +0 -0
  198. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma.egg-info/requires.txt +0 -0
  199. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/aiagents4pharma.egg-info/top_level.txt +0 -0
  200. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/pyproject.toml +0 -0
  201. {aiagents4pharma-1.26.0 → aiagents4pharma-1.26.2}/setup.cfg +0 -0
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.2
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  Name: aiagents4pharma
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- Version: 1.26.0
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+ Version: 1.26.2
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  Summary: AI Agents for drug discovery, drug development, and other pharmaceutical R&D.
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  Classifier: Programming Language :: Python :: 3
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  Classifier: License :: OSI Approved :: MIT License
@@ -91,6 +91,7 @@ Our toolkit currently consists of the following agents:
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  ![Python Version from PEP 621 TOML](https://img.shields.io/python/required-version-toml?tomlFilePath=https%3A%2F%2Fraw.githubusercontent.com%2FVirtualPatientEngine%2FAIAgents4Pharma%2Frefs%2Fheads%2Fmain%2Fpyproject.toml)
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  ### Installation
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+ _Please use version 1.26.2 or later for better support with NVIDIA NIM models._
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  #### Option 1: PyPI
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@@ -26,6 +26,7 @@ Our toolkit currently consists of the following agents:
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  ![Python Version from PEP 621 TOML](https://img.shields.io/python/required-version-toml?tomlFilePath=https%3A%2F%2Fraw.githubusercontent.com%2FVirtualPatientEngine%2FAIAgents4Pharma%2Frefs%2Fheads%2Fmain%2Fpyproject.toml)
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  ### Installation
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+ _Please use version 1.26.2 or later for better support with NVIDIA NIM models._
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  #### Option 1: PyPI
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@@ -22,10 +22,11 @@ def get_app(uniq_id, llm_model: BaseChatModel):
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  '''
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  This function returns the langraph app.
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  '''
25
- if llm_model.model_name == 'gpt-4o-mini':
26
- llm_model = ChatOpenAI(model='gpt-4o-mini',
27
- temperature=0,
28
- model_kwargs={"parallel_tool_calls": False})
25
+ if hasattr(llm_model, 'model_name'):
26
+ if llm_model.model_name == 'gpt-4o-mini':
27
+ llm_model = ChatOpenAI(model='gpt-4o-mini',
28
+ temperature=0,
29
+ model_kwargs={"parallel_tool_calls": False})
29
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  # Load hydra configuration
30
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  logger.log(logging.INFO, "Launching AIAgents4Pharma_Agent with thread_id %s", uniq_id)
31
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  with hydra.initialize(version_base=None, config_path="../configs"):
@@ -57,7 +58,7 @@ def get_app(uniq_id, llm_model: BaseChatModel):
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  # Full history is needed to extract
58
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  # the tool artifacts
59
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  output_mode="full_history",
60
- add_handoff_back_messages=False,
61
+ add_handoff_back_messages=True,
61
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  prompt=system_prompt
62
63
  )
63
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@@ -0,0 +1,16 @@
1
+ _target_: agents.main_agent.get_app
2
+ system_prompt: >
3
+ You are Talk2AIAgents4Pharma agent.
4
+ You are managing a team of the following 2 agents:
5
+
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+ 1. Talk2Biomodels (T2B) agent: This agent can search and
7
+ operate on mathematical models of biological systems. This
8
+ agent can also query an uploaded document/pdf/article.
9
+
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+ 2. Talk2KnowledgeGraphs (T2KG) agent: This agent can
11
+ reason over a knowledge graph of biological entities
12
+ and their relationships to answer subjective questions.
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+ Do not call this agent for objective questions or questions
14
+ related to the mathematical models of biological systems.
15
+
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+ Below mentioned are the prompts for each agent:
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.2
2
2
  Name: aiagents4pharma
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- Version: 1.26.0
3
+ Version: 1.26.2
4
4
  Summary: AI Agents for drug discovery, drug development, and other pharmaceutical R&D.
5
5
  Classifier: Programming Language :: Python :: 3
6
6
  Classifier: License :: OSI Approved :: MIT License
@@ -91,6 +91,7 @@ Our toolkit currently consists of the following agents:
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  ![Python Version from PEP 621 TOML](https://img.shields.io/python/required-version-toml?tomlFilePath=https%3A%2F%2Fraw.githubusercontent.com%2FVirtualPatientEngine%2FAIAgents4Pharma%2Frefs%2Fheads%2Fmain%2Fpyproject.toml)
92
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93
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  ### Installation
94
+ _Please use version 1.26.2 or later for better support with NVIDIA NIM models._
94
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  #### Option 1: PyPI
96
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@@ -0,0 +1 @@
1
+ v1.26.2
@@ -1,12 +0,0 @@
1
- _target_: agents.main_agent.get_app
2
- system_prompt: >
3
- You are Talk2AIAgents4Pharma agent.
4
- You are managing a team of the following 2 agents:
5
-
6
- 1. Talk2Biomodels (T2B) agent: This agent can operate
7
- on mathematical models of biological systems. This
8
- agent can also query an uploaded document/pdf/article.
9
-
10
- 2. Talk2KnowledgeGraphs (T2KG) agent: This agent can
11
- reason over a knowledge graph of biological entities
12
- and their relationships.
@@ -1 +0,0 @@
1
- v1.26.0