aiagents4pharma 1.23.2__tar.gz → 1.24.0__tar.gz

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  1. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/PKG-INFO +48 -10
  2. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/README.md +47 -9
  3. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma.egg-info/PKG-INFO +48 -10
  4. aiagents4pharma-1.24.0/release_version.txt +1 -0
  5. aiagents4pharma-1.23.2/release_version.txt +0 -1
  6. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/LICENSE +0 -0
  7. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/__init__.py +0 -0
  8. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/__init__.py +0 -0
  9. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/agents/__init__.py +0 -0
  10. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/agents/t2b_agent.py +0 -0
  11. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/api/__init__.py +0 -0
  12. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/api/kegg.py +0 -0
  13. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/api/ols.py +0 -0
  14. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/api/uniprot.py +0 -0
  15. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/configs/__init__.py +0 -0
  16. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/configs/agents/__init__.py +0 -0
  17. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/configs/agents/t2b_agent/__init__.py +0 -0
  18. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/configs/agents/t2b_agent/default.yaml +0 -0
  19. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/configs/config.yaml +0 -0
  20. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/configs/tools/__init__.py +0 -0
  21. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/configs/tools/ask_question/__init__.py +0 -0
  22. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/configs/tools/ask_question/default.yaml +0 -0
  23. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/configs/tools/custom_plotter/__init__.py +0 -0
  24. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/configs/tools/custom_plotter/default.yaml +0 -0
  25. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/configs/tools/get_annotation/__init__.py +0 -0
  26. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/configs/tools/get_annotation/default.yaml +0 -0
  27. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/models/__init__.py +0 -0
  28. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/models/basico_model.py +0 -0
  29. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/models/sys_bio_model.py +0 -0
  30. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/states/__init__.py +0 -0
  31. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/states/state_talk2biomodels.py +0 -0
  32. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tests/__init__.py +0 -0
  33. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tests/test_api.py +0 -0
  34. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tests/test_ask_question.py +0 -0
  35. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tests/test_basico_model.py +0 -0
  36. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tests/test_get_annotation.py +0 -0
  37. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tests/test_getmodelinfo.py +0 -0
  38. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tests/test_integration.py +0 -0
  39. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tests/test_load_biomodel.py +0 -0
  40. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tests/test_param_scan.py +0 -0
  41. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tests/test_query_article.py +0 -0
  42. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tests/test_search_models.py +0 -0
  43. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tests/test_simulate_model.py +0 -0
  44. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tests/test_steady_state.py +0 -0
  45. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tests/test_sys_bio_model.py +0 -0
  46. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tools/__init__.py +0 -0
  47. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tools/ask_question.py +0 -0
  48. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tools/custom_plotter.py +0 -0
  49. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tools/get_annotation.py +0 -0
  50. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tools/get_modelinfo.py +0 -0
  51. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tools/load_arguments.py +0 -0
  52. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tools/load_biomodel.py +0 -0
  53. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tools/parameter_scan.py +0 -0
  54. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tools/query_article.py +0 -0
  55. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tools/search_models.py +0 -0
  56. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tools/simulate_model.py +0 -0
  57. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tools/steady_state.py +0 -0
  58. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2biomodels/tools/utils.py +0 -0
  59. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2cells/__init__.py +0 -0
  60. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2cells/agents/__init__.py +0 -0
  61. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2cells/agents/scp_agent.py +0 -0
  62. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2cells/states/__init__.py +0 -0
  63. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2cells/states/state_talk2cells.py +0 -0
  64. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2cells/tests/scp_agent/test_scp_agent.py +0 -0
  65. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2cells/tools/__init__.py +0 -0
  66. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2cells/tools/scp_agent/__init__.py +0 -0
  67. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2cells/tools/scp_agent/display_studies.py +0 -0
  68. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2cells/tools/scp_agent/search_studies.py +0 -0
  69. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/__init__.py +0 -0
  70. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/agents/__init__.py +0 -0
  71. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/agents/t2kg_agent.py +0 -0
  72. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/configs/__init__.py +0 -0
  73. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/configs/agents/t2kg_agent/__init__.py +0 -0
  74. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/configs/agents/t2kg_agent/default.yaml +0 -0
  75. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/configs/app/__init__.py +0 -0
  76. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/configs/app/frontend/__init__.py +0 -0
  77. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/configs/app/frontend/default.yaml +0 -0
  78. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/configs/config.yaml +0 -0
  79. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/configs/tools/__init__.py +0 -0
  80. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/configs/tools/graphrag_reasoning/__init__.py +0 -0
  81. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/configs/tools/graphrag_reasoning/default.yaml +0 -0
  82. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/configs/tools/subgraph_extraction/__init__.py +0 -0
  83. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/configs/tools/subgraph_extraction/default.yaml +0 -0
  84. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/configs/tools/subgraph_summarization/__init__.py +0 -0
  85. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/configs/tools/subgraph_summarization/default.yaml +0 -0
  86. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/datasets/__init__.py +0 -0
  87. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/datasets/biobridge_primekg.py +0 -0
  88. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/datasets/dataset.py +0 -0
  89. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/datasets/primekg.py +0 -0
  90. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/datasets/starkqa_primekg.py +0 -0
  91. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/states/__init__.py +0 -0
  92. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/states/state_talk2knowledgegraphs.py +0 -0
  93. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/__init__.py +0 -0
  94. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/test_agents_t2kg_agent.py +0 -0
  95. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/test_datasets_biobridge_primekg.py +0 -0
  96. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/test_datasets_dataset.py +0 -0
  97. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/test_datasets_primekg.py +0 -0
  98. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/test_datasets_starkqa_primekg.py +0 -0
  99. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/test_tools_graphrag_reasoning.py +0 -0
  100. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/test_tools_subgraph_extraction.py +0 -0
  101. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/test_tools_subgraph_summarization.py +0 -0
  102. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_embeddings_embeddings.py +0 -0
  103. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_embeddings_huggingface.py +0 -0
  104. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_embeddings_nim_molmim.py +0 -0
  105. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_embeddings_ollama.py +0 -0
  106. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_embeddings_sentencetransformer.py +0 -0
  107. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_enrichments_enrichments.py +0 -0
  108. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_enrichments_ollama.py +0 -0
  109. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_enrichments_pubchem.py +0 -0
  110. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_kg_utils.py +0 -0
  111. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_pubchem_utils.py +0 -0
  112. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tools/__init__.py +0 -0
  113. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tools/graphrag_reasoning.py +0 -0
  114. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tools/load_arguments.py +0 -0
  115. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tools/subgraph_extraction.py +0 -0
  116. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/tools/subgraph_summarization.py +0 -0
  117. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/utils/__init__.py +0 -0
  118. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/utils/embeddings/__init__.py +0 -0
  119. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/utils/embeddings/embeddings.py +0 -0
  120. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/utils/embeddings/huggingface.py +0 -0
  121. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/utils/embeddings/nim_molmim.py +0 -0
  122. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/utils/embeddings/ollama.py +0 -0
  123. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/utils/embeddings/sentence_transformer.py +0 -0
  124. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/utils/enrichments/__init__.py +0 -0
  125. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/utils/enrichments/enrichments.py +0 -0
  126. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/utils/enrichments/ollama.py +0 -0
  127. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/utils/enrichments/pubchem_strings.py +0 -0
  128. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/utils/extractions/__init__.py +0 -0
  129. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/utils/extractions/pcst.py +0 -0
  130. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/utils/kg_utils.py +0 -0
  131. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2knowledgegraphs/utils/pubchem_utils.py +0 -0
  132. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/__init__.py +0 -0
  133. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/agents/__init__.py +0 -0
  134. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/agents/main_agent.py +0 -0
  135. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/agents/s2_agent.py +0 -0
  136. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/agents/zotero_agent.py +0 -0
  137. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/__init__.py +0 -0
  138. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/agents/__init__.py +0 -0
  139. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/__init__.py +0 -0
  140. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/main_agent/__init__.py +0 -0
  141. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/main_agent/default.yaml +0 -0
  142. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/s2_agent/__init__.py +0 -0
  143. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/s2_agent/default.yaml +0 -0
  144. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/zotero_agent/__init__.py +0 -0
  145. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/zotero_agent/default.yaml +0 -0
  146. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/app/__init__.py +0 -0
  147. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/app/frontend/__init__.py +0 -0
  148. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/app/frontend/default.yaml +0 -0
  149. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/config.yaml +0 -0
  150. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/tools/__init__.py +0 -0
  151. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/tools/multi_paper_recommendation/__init__.py +0 -0
  152. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/tools/multi_paper_recommendation/default.yaml +0 -0
  153. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/tools/retrieve_semantic_scholar_paper_id/__init__.py +0 -0
  154. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/tools/retrieve_semantic_scholar_paper_id/default.yaml +0 -0
  155. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/tools/search/__init__.py +0 -0
  156. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/tools/search/default.yaml +0 -0
  157. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/tools/single_paper_recommendation/__init__.py +0 -0
  158. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/tools/single_paper_recommendation/default.yaml +0 -0
  159. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/tools/zotero_read/__init__.py +0 -0
  160. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/configs/tools/zotero_read/default.yaml +0 -0
  161. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/state/__init__.py +0 -0
  162. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/state/state_talk2scholars.py +0 -0
  163. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tests/__init__.py +0 -0
  164. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tests/test_call_s2.py +0 -0
  165. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tests/test_call_zotero.py +0 -0
  166. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tests/test_llm_main_integration.py +0 -0
  167. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tests/test_main_agent.py +0 -0
  168. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tests/test_routing_logic.py +0 -0
  169. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tests/test_s2_agent.py +0 -0
  170. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tests/test_s2_tools.py +0 -0
  171. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tests/test_state.py +0 -0
  172. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tests/test_zotero_agent.py +0 -0
  173. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tests/test_zotero_tool.py +0 -0
  174. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tools/__init__.py +0 -0
  175. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tools/s2/__init__.py +0 -0
  176. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tools/s2/display_results.py +0 -0
  177. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tools/s2/multi_paper_rec.py +0 -0
  178. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tools/s2/query_results.py +0 -0
  179. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tools/s2/retrieve_semantic_scholar_paper_id.py +0 -0
  180. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tools/s2/search.py +0 -0
  181. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tools/s2/single_paper_rec.py +0 -0
  182. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tools/zotero/__init__.py +0 -0
  183. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma/talk2scholars/tools/zotero/zotero_read.py +0 -0
  184. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma.egg-info/SOURCES.txt +0 -0
  185. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma.egg-info/dependency_links.txt +0 -0
  186. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma.egg-info/requires.txt +0 -0
  187. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/aiagents4pharma.egg-info/top_level.txt +0 -0
  188. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/pyproject.toml +0 -0
  189. {aiagents4pharma-1.23.2 → aiagents4pharma-1.24.0}/setup.cfg +0 -0
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.2
2
2
  Name: aiagents4pharma
3
- Version: 1.23.2
3
+ Version: 1.24.0
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
@@ -100,21 +100,62 @@ pip install aiagents4pharma
100
100
 
101
101
  Check out the tutorials on each agent for detailed instrcutions.
102
102
 
103
- #### Option 2: docker hub
103
+ #### Option 2: Docker Hub
104
104
 
105
- _Please note that this option is currently available only for Talk2Biomodels._
105
+ _Both `Talk2Biomodels` and `Talk2Scholars` are now available on Docker Hub._
106
106
 
107
- 1. **Pull the image**
108
- ```
107
+ #### **Running Talk2Biomodels**
108
+
109
+ 1. **Pull the Docker image**
110
+ ```bash
109
111
  docker pull virtualpatientengine/talk2biomodels
110
112
  ```
111
- 2. **Run a container**
113
+ 2. **Run the container**
114
+ ```bash
115
+ docker run -d \
116
+ -e OPENAI_API_KEY=<your_openai_api_key> \
117
+ -e NVIDIA_API_KEY=<your_nvidia_api_key> \
118
+ -p 8501:8501 \
119
+ virtualpatientengine/talk2biomodels
120
+ ```
121
+ 3. **Access the Web App**
122
+ Open your browser and go to:
112
123
  ```
113
- docker run -e OPENAI_API_KEY=<openai_api_key> -e NVIDIA_API_KEY=<nvidia_api_key> -p 8501:8501 virtualpatientengine/talk2biomodels
124
+ http://localhost:8501
114
125
  ```
115
126
  _You can create a free account at NVIDIA and apply for their
116
127
  free credits [here](https://build.nvidia.com/explore/discover)._
117
128
 
129
+ #### **Running Talk2Scholars**
130
+
131
+ 1. **Pull the Docker image**
132
+ ```bash
133
+ docker pull virtualpatientengine/talk2scholars
134
+ ```
135
+ 2. **Run the container**
136
+ ```bash
137
+ docker run -d \
138
+ -e OPENAI_API_KEY=<your_openai_api_key> \
139
+ -e ZOTERO_API_KEY=<your_zotero_api_key> \
140
+ -e ZOTERO_USER_ID=<your_zotero_user_id> \
141
+ -p 8501:8501 \
142
+ virtualpatientengine/talk2scholars
143
+ ```
144
+ 3. **Access the Web App**
145
+ Open your browser and go to:
146
+ ```
147
+ http://localhost:8501
148
+ ```
149
+
150
+ #### **Notes**
151
+
152
+ - Ensure you **replace `<your_openai_api_key>`, `<your_nvidia_api_key>`, `<your_zotero_api_key>`, and `<your_zotero_user_id>`** with your actual credentials.
153
+ - Both applications use **port `8501`**, so run them on different ports if needed:
154
+ ```bash
155
+ docker run -d -e OPENAI_API_KEY=<your_openai_api_key> -p 8501:8501 virtualpatientengine/talk2scholars
156
+ ```
157
+ Then, access it via `http://localhost:8501`.
158
+
118
159
  #### Option 3: git
119
160
 
120
161
  1. **Clone the repository:**
@@ -130,9 +171,6 @@ _Please note that this option is currently available only for Talk2Biomodels._
130
171
 
131
172
  ```bash
132
173
  export OPENAI_API_KEY=....
133
- ```
134
-
135
- ```bash
136
174
  export NVIDIA_API_KEY=....
137
175
  ```
138
176
 
@@ -33,21 +33,62 @@ pip install aiagents4pharma
33
33
 
34
34
  Check out the tutorials on each agent for detailed instrcutions.
35
35
 
36
- #### Option 2: docker hub
36
+ #### Option 2: Docker Hub
37
37
 
38
- _Please note that this option is currently available only for Talk2Biomodels._
38
+ _Both `Talk2Biomodels` and `Talk2Scholars` are now available on Docker Hub._
39
39
 
40
- 1. **Pull the image**
41
- ```
40
+ #### **Running Talk2Biomodels**
41
+
42
+ 1. **Pull the Docker image**
43
+ ```bash
42
44
  docker pull virtualpatientengine/talk2biomodels
43
45
  ```
44
- 2. **Run a container**
46
+ 2. **Run the container**
47
+ ```bash
48
+ docker run -d \
49
+ -e OPENAI_API_KEY=<your_openai_api_key> \
50
+ -e NVIDIA_API_KEY=<your_nvidia_api_key> \
51
+ -p 8501:8501 \
52
+ virtualpatientengine/talk2biomodels
53
+ ```
54
+ 3. **Access the Web App**
55
+ Open your browser and go to:
45
56
  ```
46
- docker run -e OPENAI_API_KEY=<openai_api_key> -e NVIDIA_API_KEY=<nvidia_api_key> -p 8501:8501 virtualpatientengine/talk2biomodels
57
+ http://localhost:8501
47
58
  ```
48
59
  _You can create a free account at NVIDIA and apply for their
49
60
  free credits [here](https://build.nvidia.com/explore/discover)._
50
61
 
62
+ #### **Running Talk2Scholars**
63
+
64
+ 1. **Pull the Docker image**
65
+ ```bash
66
+ docker pull virtualpatientengine/talk2scholars
67
+ ```
68
+ 2. **Run the container**
69
+ ```bash
70
+ docker run -d \
71
+ -e OPENAI_API_KEY=<your_openai_api_key> \
72
+ -e ZOTERO_API_KEY=<your_zotero_api_key> \
73
+ -e ZOTERO_USER_ID=<your_zotero_user_id> \
74
+ -p 8501:8501 \
75
+ virtualpatientengine/talk2scholars
76
+ ```
77
+ 3. **Access the Web App**
78
+ Open your browser and go to:
79
+ ```
80
+ http://localhost:8501
81
+ ```
82
+
83
+ #### **Notes**
84
+
85
+ - Ensure you **replace `<your_openai_api_key>`, `<your_nvidia_api_key>`, `<your_zotero_api_key>`, and `<your_zotero_user_id>`** with your actual credentials.
86
+ - Both applications use **port `8501`**, so run them on different ports if needed:
87
+ ```bash
88
+ docker run -d -e OPENAI_API_KEY=<your_openai_api_key> -p 8501:8501 virtualpatientengine/talk2scholars
89
+ ```
90
+ Then, access it via `http://localhost:8501`.
91
+
51
92
  #### Option 3: git
52
93
 
53
94
  1. **Clone the repository:**
@@ -63,9 +104,6 @@ _Please note that this option is currently available only for Talk2Biomodels._
63
104
 
64
105
  ```bash
65
106
  export OPENAI_API_KEY=....
66
- ```
67
-
68
- ```bash
69
107
  export NVIDIA_API_KEY=....
70
108
  ```
71
109
 
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.2
2
2
  Name: aiagents4pharma
3
- Version: 1.23.2
3
+ Version: 1.24.0
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
@@ -100,21 +100,62 @@ pip install aiagents4pharma
100
100
 
101
101
  Check out the tutorials on each agent for detailed instrcutions.
102
102
 
103
- #### Option 2: docker hub
103
+ #### Option 2: Docker Hub
104
104
 
105
- _Please note that this option is currently available only for Talk2Biomodels._
105
+ _Both `Talk2Biomodels` and `Talk2Scholars` are now available on Docker Hub._
106
106
 
107
- 1. **Pull the image**
108
- ```
107
+ #### **Running Talk2Biomodels**
108
+
109
+ 1. **Pull the Docker image**
110
+ ```bash
109
111
  docker pull virtualpatientengine/talk2biomodels
110
112
  ```
111
- 2. **Run a container**
113
+ 2. **Run the container**
114
+ ```bash
115
+ docker run -d \
116
+ -e OPENAI_API_KEY=<your_openai_api_key> \
117
+ -e NVIDIA_API_KEY=<your_nvidia_api_key> \
118
+ -p 8501:8501 \
119
+ virtualpatientengine/talk2biomodels
120
+ ```
121
+ 3. **Access the Web App**
122
+ Open your browser and go to:
112
123
  ```
113
- docker run -e OPENAI_API_KEY=<openai_api_key> -e NVIDIA_API_KEY=<nvidia_api_key> -p 8501:8501 virtualpatientengine/talk2biomodels
124
+ http://localhost:8501
114
125
  ```
115
126
  _You can create a free account at NVIDIA and apply for their
116
127
  free credits [here](https://build.nvidia.com/explore/discover)._
117
128
 
129
+ #### **Running Talk2Scholars**
130
+
131
+ 1. **Pull the Docker image**
132
+ ```bash
133
+ docker pull virtualpatientengine/talk2scholars
134
+ ```
135
+ 2. **Run the container**
136
+ ```bash
137
+ docker run -d \
138
+ -e OPENAI_API_KEY=<your_openai_api_key> \
139
+ -e ZOTERO_API_KEY=<your_zotero_api_key> \
140
+ -e ZOTERO_USER_ID=<your_zotero_user_id> \
141
+ -p 8501:8501 \
142
+ virtualpatientengine/talk2scholars
143
+ ```
144
+ 3. **Access the Web App**
145
+ Open your browser and go to:
146
+ ```
147
+ http://localhost:8501
148
+ ```
149
+
150
+ #### **Notes**
151
+
152
+ - Ensure you **replace `<your_openai_api_key>`, `<your_nvidia_api_key>`, `<your_zotero_api_key>`, and `<your_zotero_user_id>`** with your actual credentials.
153
+ - Both applications use **port `8501`**, so run them on different ports if needed:
154
+ ```bash
155
+ docker run -d -e OPENAI_API_KEY=<your_openai_api_key> -p 8501:8501 virtualpatientengine/talk2scholars
156
+ ```
157
+ Then, access it via `http://localhost:8501`.
158
+
118
159
  #### Option 3: git
119
160
 
120
161
  1. **Clone the repository:**
@@ -130,9 +171,6 @@ _Please note that this option is currently available only for Talk2Biomodels._
130
171
 
131
172
  ```bash
132
173
  export OPENAI_API_KEY=....
133
- ```
134
-
135
- ```bash
136
174
  export NVIDIA_API_KEY=....
137
175
  ```
138
176
 
@@ -0,0 +1 @@
1
+ v1.24.0
@@ -1 +0,0 @@
1
- v1.23.2