aiagents4pharma 1.39.2__tar.gz → 1.39.3__tar.gz

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (265) hide show
  1. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/PKG-INFO +14 -13
  2. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/README.md +13 -12
  3. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma.egg-info/PKG-INFO +14 -13
  4. aiagents4pharma-1.39.3/release_version.txt +1 -0
  5. aiagents4pharma-1.39.2/release_version.txt +0 -1
  6. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/LICENSE +0 -0
  7. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/__init__.py +0 -0
  8. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2aiagents4pharma/__init__.py +0 -0
  9. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2aiagents4pharma/agents/__init__.py +0 -0
  10. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2aiagents4pharma/agents/main_agent.py +0 -0
  11. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2aiagents4pharma/configs/__init__.py +0 -0
  12. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2aiagents4pharma/configs/agents/__init__.py +0 -0
  13. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2aiagents4pharma/configs/agents/main_agent/default.yaml +0 -0
  14. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2aiagents4pharma/configs/config.yaml +0 -0
  15. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2aiagents4pharma/states/__init__.py +0 -0
  16. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2aiagents4pharma/states/state_talk2aiagents4pharma.py +0 -0
  17. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2aiagents4pharma/tests/__init__.py +0 -0
  18. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2aiagents4pharma/tests/test_main_agent.py +0 -0
  19. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/__init__.py +0 -0
  20. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/agents/__init__.py +0 -0
  21. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/agents/t2b_agent.py +0 -0
  22. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/api/__init__.py +0 -0
  23. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/api/kegg.py +0 -0
  24. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/api/ols.py +0 -0
  25. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/api/uniprot.py +0 -0
  26. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/configs/__init__.py +0 -0
  27. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/configs/agents/__init__.py +0 -0
  28. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/configs/agents/t2b_agent/__init__.py +0 -0
  29. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/configs/agents/t2b_agent/default.yaml +0 -0
  30. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/configs/config.yaml +0 -0
  31. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/configs/tools/__init__.py +0 -0
  32. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/configs/tools/ask_question/__init__.py +0 -0
  33. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/configs/tools/ask_question/default.yaml +0 -0
  34. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/configs/tools/custom_plotter/__init__.py +0 -0
  35. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/configs/tools/custom_plotter/default.yaml +0 -0
  36. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/configs/tools/get_annotation/__init__.py +0 -0
  37. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/configs/tools/get_annotation/default.yaml +0 -0
  38. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/models/__init__.py +0 -0
  39. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/models/basico_model.py +0 -0
  40. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/models/sys_bio_model.py +0 -0
  41. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/states/__init__.py +0 -0
  42. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/states/state_talk2biomodels.py +0 -0
  43. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tests/__init__.py +0 -0
  44. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tests/test_api.py +0 -0
  45. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tests/test_ask_question.py +0 -0
  46. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tests/test_basico_model.py +0 -0
  47. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tests/test_get_annotation.py +0 -0
  48. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tests/test_getmodelinfo.py +0 -0
  49. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tests/test_integration.py +0 -0
  50. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tests/test_load_biomodel.py +0 -0
  51. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tests/test_param_scan.py +0 -0
  52. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tests/test_query_article.py +0 -0
  53. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tests/test_search_models.py +0 -0
  54. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tests/test_simulate_model.py +0 -0
  55. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tests/test_steady_state.py +0 -0
  56. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tests/test_sys_bio_model.py +0 -0
  57. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tools/__init__.py +0 -0
  58. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tools/ask_question.py +0 -0
  59. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tools/custom_plotter.py +0 -0
  60. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tools/get_annotation.py +0 -0
  61. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tools/get_modelinfo.py +0 -0
  62. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tools/load_arguments.py +0 -0
  63. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tools/load_biomodel.py +0 -0
  64. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tools/parameter_scan.py +0 -0
  65. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tools/query_article.py +0 -0
  66. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tools/search_models.py +0 -0
  67. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tools/simulate_model.py +0 -0
  68. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tools/steady_state.py +0 -0
  69. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2biomodels/tools/utils.py +0 -0
  70. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2cells/__init__.py +0 -0
  71. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2cells/agents/__init__.py +0 -0
  72. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2cells/agents/scp_agent.py +0 -0
  73. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2cells/states/__init__.py +0 -0
  74. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2cells/states/state_talk2cells.py +0 -0
  75. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2cells/tests/scp_agent/test_scp_agent.py +0 -0
  76. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2cells/tools/__init__.py +0 -0
  77. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2cells/tools/scp_agent/__init__.py +0 -0
  78. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2cells/tools/scp_agent/display_studies.py +0 -0
  79. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2cells/tools/scp_agent/search_studies.py +0 -0
  80. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/__init__.py +0 -0
  81. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/agents/__init__.py +0 -0
  82. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/agents/t2kg_agent.py +0 -0
  83. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/configs/__init__.py +0 -0
  84. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/configs/agents/t2kg_agent/__init__.py +0 -0
  85. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/configs/agents/t2kg_agent/default.yaml +0 -0
  86. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/configs/app/__init__.py +0 -0
  87. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/configs/app/frontend/__init__.py +0 -0
  88. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/configs/app/frontend/default.yaml +0 -0
  89. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/configs/config.yaml +0 -0
  90. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/configs/tools/__init__.py +0 -0
  91. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/configs/tools/graphrag_reasoning/__init__.py +0 -0
  92. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/configs/tools/graphrag_reasoning/default.yaml +0 -0
  93. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/configs/tools/multimodal_subgraph_extraction/__init__.py +0 -0
  94. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/configs/tools/subgraph_extraction/__init__.py +0 -0
  95. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/configs/tools/subgraph_extraction/default.yaml +0 -0
  96. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/configs/tools/subgraph_summarization/__init__.py +0 -0
  97. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/configs/tools/subgraph_summarization/default.yaml +0 -0
  98. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/datasets/__init__.py +0 -0
  99. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/datasets/biobridge_primekg.py +0 -0
  100. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/datasets/dataset.py +0 -0
  101. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/datasets/primekg.py +0 -0
  102. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/datasets/starkqa_primekg.py +0 -0
  103. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/states/__init__.py +0 -0
  104. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/states/state_talk2knowledgegraphs.py +0 -0
  105. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/__init__.py +0 -0
  106. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_agents_t2kg_agent.py +0 -0
  107. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_datasets_biobridge_primekg.py +0 -0
  108. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_datasets_dataset.py +0 -0
  109. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_datasets_primekg.py +0 -0
  110. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_datasets_starkqa_primekg.py +0 -0
  111. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_tools_graphrag_reasoning.py +0 -0
  112. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_tools_multimodal_subgraph_extraction.py +0 -0
  113. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_tools_subgraph_extraction.py +0 -0
  114. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_tools_subgraph_summarization.py +0 -0
  115. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_embeddings_embeddings.py +0 -0
  116. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_embeddings_huggingface.py +0 -0
  117. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_embeddings_nim_molmim.py +0 -0
  118. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_embeddings_ollama.py +0 -0
  119. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_embeddings_sentencetransformer.py +0 -0
  120. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_enrichments_enrichments.py +0 -0
  121. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_enrichments_ollama.py +0 -0
  122. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_enrichments_ols.py +0 -0
  123. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_enrichments_pubchem.py +0 -0
  124. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_enrichments_reactome.py +0 -0
  125. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_enrichments_uniprot.py +0 -0
  126. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_kg_utils.py +0 -0
  127. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tests/test_utils_pubchem_utils.py +0 -0
  128. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tools/__init__.py +0 -0
  129. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tools/graphrag_reasoning.py +0 -0
  130. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tools/load_arguments.py +0 -0
  131. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tools/multimodal_subgraph_extraction.py +0 -0
  132. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tools/subgraph_extraction.py +0 -0
  133. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/tools/subgraph_summarization.py +0 -0
  134. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/__init__.py +0 -0
  135. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/embeddings/__init__.py +0 -0
  136. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/embeddings/embeddings.py +0 -0
  137. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/embeddings/huggingface.py +0 -0
  138. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/embeddings/nim_molmim.py +0 -0
  139. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/embeddings/ollama.py +0 -0
  140. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/embeddings/sentence_transformer.py +0 -0
  141. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/enrichments/__init__.py +0 -0
  142. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/enrichments/enrichments.py +0 -0
  143. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/enrichments/ollama.py +0 -0
  144. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/enrichments/ols_terms.py +0 -0
  145. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/enrichments/pubchem_strings.py +0 -0
  146. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/enrichments/reactome_pathways.py +0 -0
  147. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/enrichments/uniprot_proteins.py +0 -0
  148. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/extractions/__init__.py +0 -0
  149. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/extractions/multimodal_pcst.py +0 -0
  150. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/extractions/pcst.py +0 -0
  151. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/kg_utils.py +0 -0
  152. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2knowledgegraphs/utils/pubchem_utils.py +0 -0
  153. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/__init__.py +0 -0
  154. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/agents/__init__.py +0 -0
  155. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/agents/main_agent.py +0 -0
  156. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/agents/paper_download_agent.py +0 -0
  157. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/agents/pdf_agent.py +0 -0
  158. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/agents/s2_agent.py +0 -0
  159. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/agents/zotero_agent.py +0 -0
  160. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/__init__.py +0 -0
  161. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/agents/__init__.py +0 -0
  162. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/__init__.py +0 -0
  163. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/main_agent/__init__.py +0 -0
  164. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/main_agent/default.yaml +0 -0
  165. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/paper_download_agent/__init__.py +0 -0
  166. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/paper_download_agent/default.yaml +0 -0
  167. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/pdf_agent/__init__.py +0 -0
  168. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/pdf_agent/default.yaml +0 -0
  169. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/s2_agent/__init__.py +0 -0
  170. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/s2_agent/default.yaml +0 -0
  171. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/zotero_agent/__init__.py +0 -0
  172. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/agents/talk2scholars/zotero_agent/default.yaml +0 -0
  173. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/app/__init__.py +0 -0
  174. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/app/frontend/__init__.py +0 -0
  175. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/app/frontend/default.yaml +0 -0
  176. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/config.yaml +0 -0
  177. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/__init__.py +0 -0
  178. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/download_arxiv_paper/__init__.py +0 -0
  179. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/download_arxiv_paper/default.yaml +0 -0
  180. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/download_biorxiv_paper/__init__.py +0 -0
  181. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/download_biorxiv_paper/default.yaml +0 -0
  182. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/download_medrxiv_paper/__init__.py +0 -0
  183. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/download_medrxiv_paper/default.yaml +0 -0
  184. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/multi_paper_recommendation/__init__.py +0 -0
  185. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/multi_paper_recommendation/default.yaml +0 -0
  186. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/question_and_answer/__init__.py +0 -0
  187. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/question_and_answer/default.yaml +0 -0
  188. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/retrieve_semantic_scholar_paper_id/__init__.py +0 -0
  189. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/retrieve_semantic_scholar_paper_id/default.yaml +0 -0
  190. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/search/__init__.py +0 -0
  191. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/search/default.yaml +0 -0
  192. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/single_paper_recommendation/__init__.py +0 -0
  193. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/single_paper_recommendation/default.yaml +0 -0
  194. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/zotero_read/__init__.py +0 -0
  195. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/zotero_read/default.yaml +0 -0
  196. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/zotero_write/__inti__.py +0 -0
  197. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/configs/tools/zotero_write/default.yaml +0 -0
  198. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/state/__init__.py +0 -0
  199. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/state/state_talk2scholars.py +0 -0
  200. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/__init__.py +0 -0
  201. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_main_agent.py +0 -0
  202. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_nvidia_nim_reranker_utils.py +0 -0
  203. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_paper_download_agent.py +0 -0
  204. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_paper_download_biorxiv.py +0 -0
  205. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_paper_download_medrxiv.py +0 -0
  206. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_paper_download_tools.py +0 -0
  207. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_pdf_agent.py +0 -0
  208. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_question_and_answer_tool.py +0 -0
  209. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_read_helper_utils.py +0 -0
  210. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_s2_agent.py +0 -0
  211. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_s2_display_dataframe.py +0 -0
  212. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_s2_multi.py +0 -0
  213. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_s2_query_dataframe.py +0 -0
  214. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_s2_retrieve.py +0 -0
  215. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_s2_search.py +0 -0
  216. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_s2_single.py +0 -0
  217. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_s2_utils_ext_ids.py +0 -0
  218. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_state.py +0 -0
  219. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_tool_helper_utils.py +0 -0
  220. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_zotero_agent.py +0 -0
  221. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_zotero_human_in_the_loop.py +0 -0
  222. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_zotero_path.py +0 -0
  223. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_zotero_pdf_downloader_utils.py +0 -0
  224. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_zotero_read.py +0 -0
  225. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tests/test_zotero_write.py +0 -0
  226. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/__init__.py +0 -0
  227. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/paper_download/__init__.py +0 -0
  228. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/paper_download/download_arxiv_input.py +0 -0
  229. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/paper_download/download_biorxiv_input.py +0 -0
  230. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/paper_download/download_medrxiv_input.py +0 -0
  231. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/pdf/__init__.py +0 -0
  232. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/pdf/question_and_answer.py +0 -0
  233. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/pdf/utils/__init__.py +0 -0
  234. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/pdf/utils/generate_answer.py +0 -0
  235. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/pdf/utils/nvidia_nim_reranker.py +0 -0
  236. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/pdf/utils/retrieve_chunks.py +0 -0
  237. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/pdf/utils/tool_helper.py +0 -0
  238. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/pdf/utils/vector_store.py +0 -0
  239. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/s2/__init__.py +0 -0
  240. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/s2/display_dataframe.py +0 -0
  241. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/s2/multi_paper_rec.py +0 -0
  242. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/s2/query_dataframe.py +0 -0
  243. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/s2/retrieve_semantic_scholar_paper_id.py +0 -0
  244. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/s2/search.py +0 -0
  245. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/s2/single_paper_rec.py +0 -0
  246. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/s2/utils/__init__.py +0 -0
  247. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/s2/utils/multi_helper.py +0 -0
  248. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/s2/utils/search_helper.py +0 -0
  249. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/s2/utils/single_helper.py +0 -0
  250. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/zotero/__init__.py +0 -0
  251. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/zotero/utils/__init__.py +0 -0
  252. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/zotero/utils/read_helper.py +0 -0
  253. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/zotero/utils/review_helper.py +0 -0
  254. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/zotero/utils/write_helper.py +0 -0
  255. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/zotero/utils/zotero_path.py +0 -0
  256. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/zotero/utils/zotero_pdf_downloader.py +0 -0
  257. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/zotero/zotero_read.py +0 -0
  258. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/zotero/zotero_review.py +0 -0
  259. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma/talk2scholars/tools/zotero/zotero_write.py +0 -0
  260. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma.egg-info/SOURCES.txt +0 -0
  261. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma.egg-info/dependency_links.txt +0 -0
  262. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma.egg-info/requires.txt +0 -0
  263. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma.egg-info/top_level.txt +0 -0
  264. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/pyproject.toml +0 -0
  265. {aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/setup.cfg +0 -0
{aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.4
2
2
  Name: aiagents4pharma
3
- Version: 1.39.2
3
+ Version: 1.39.3
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
@@ -114,18 +114,19 @@ _We now have all the agents available on Docker Hub._
114
114
 
115
115
  Both agents require [Ollama](https://ollama.com/) to run embedding models like `nomic-embed-text`. We use a **single startup script** that automatically detects your hardware (NVIDIA, AMD, or CPU) and handles container startup, model loading, and service orchestration.
116
116
 
117
- ##### **1. Clone the repository and navigate to the agent directory**
117
+ ##### **1. Download docker-compose.yml, .env.example and startup.sh from GitHub**
118
118
 
119
- ```sh
120
- git clone https://github.com/VirtualPatientEngine/AIAgents4Pharma
119
+ ###### Talk2Agents4Pharma
121
120
 
122
- cd AIAgents4Pharma/aiagents4pharma/<agent>
121
+ ```sh
122
+ mkdir talk2aiagents4pharma && cd talk2aiagents4pharma && wget https://raw.githubusercontent.com/VirtualPatientEngine/AIAgents4Pharma/main/aiagents4pharma/talk2aiagents4pharma/docker-compose.yml https://raw.githubusercontent.com/VirtualPatientEngine/AIAgents4Pharma/main/aiagents4pharma/talk2aiagents4pharma/.env.example https://raw.githubusercontent.com/VirtualPatientEngine/AIAgents4Pharma/main/aiagents4pharma/talk2aiagents4pharma/startup.sh
123
123
  ```
124
124
 
125
- Replace `<agent>` with either:
125
+ ###### Talk2KnowledgeGraphs
126
126
 
127
- - `talk2aiagents4pharma`
128
- - `talk2knowledgegraphs`
127
+ ```sh
128
+ mkdir talk2knowledgegraphs && cd talk2knowledgegraphs && wget https://raw.githubusercontent.com/VirtualPatientEngine/AIAgents4Pharma/main/aiagents4pharma/talk2knowledgegraphs/docker-compose.yml https://raw.githubusercontent.com/VirtualPatientEngine/AIAgents4Pharma/main/aiagents4pharma/talk2knowledgegraphs/.env.example https://raw.githubusercontent.com/VirtualPatientEngine/AIAgents4Pharma/main/aiagents4pharma/talk2knowledgegraphs/startup.sh
129
+ ```
129
130
 
130
131
  ##### **2. Setup environment variables**
131
132
 
@@ -209,8 +210,7 @@ If you are using docker on Windows, please follow these [Windows Setup Notes](ht
209
210
  1. **Clone the repository:**
210
211
 
211
212
  ```sh
212
- git clone https://github.com/VirtualPatientEngine/AIAgents4Pharma
213
- cd AIAgents4Pharma
213
+ git clone https://github.com/VirtualPatientEngine/AIAgents4Pharma && cd AIAgents4Pharma
214
214
  ```
215
215
 
216
216
  2. **Install dependencies:**
@@ -321,9 +321,10 @@ git push origin feat/your-feature-name
321
321
 
322
322
  #### Contacts for contributions
323
323
 
324
- - **Talk2Biomodels / Talk2Cells**: [@gurdeep330](https://github.com/gurdeep330), [@lilijap](https://github.com/lilijap), [@dmccloskey](https://github.com/dmccloskey)
325
- - **Talk2KnowledgeGraphs**: [@awmulyadi](https://github.com/awmulyadi), [@dmccloskey](https://github.com/dmccloskey)
326
- - **Talk2Scholars**: [@ansh-info](https://github.com/ansh-info), [@gurdeep330](https://github.com/gurdeep330), [@dmccloskey](https://github.com/dmccloskey)
324
+ - **Talk2Biomodels**: [@lilijap](https://github.com/lilijap), [@gurdeep330](https://github.com/gurdeep330)
325
+ - **Talk2Cells**: [@gurdeep330](https://github.com/gurdeep330)
326
+ - **Talk2KnowledgeGraphs**: [@awmulyadi](https://github.com/awmulyadi)
327
+ - **Talk2Scholars**: [@ansh-info](https://github.com/ansh-info), [@gurdeep330](https://github.com/gurdeep330)
327
328
 
328
329
  Please refer to our [CONTRIBUTING.md](CONTRIBUTING.md) for more detailed contribution guidelines.
329
330
 
{aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/README.md RENAMED
@@ -47,18 +47,19 @@ _We now have all the agents available on Docker Hub._
47
47
 
48
48
  Both agents require [Ollama](https://ollama.com/) to run embedding models like `nomic-embed-text`. We use a **single startup script** that automatically detects your hardware (NVIDIA, AMD, or CPU) and handles container startup, model loading, and service orchestration.
49
49
 
50
- ##### **1. Clone the repository and navigate to the agent directory**
50
+ ##### **1. Download docker-compose.yml, .env.example and startup.sh from GitHub**
51
51
 
52
- ```sh
53
- git clone https://github.com/VirtualPatientEngine/AIAgents4Pharma
52
+ ###### Talk2Agents4Pharma
54
53
 
55
- cd AIAgents4Pharma/aiagents4pharma/<agent>
54
+ ```sh
55
+ mkdir talk2aiagents4pharma && cd talk2aiagents4pharma && wget https://raw.githubusercontent.com/VirtualPatientEngine/AIAgents4Pharma/main/aiagents4pharma/talk2aiagents4pharma/docker-compose.yml https://raw.githubusercontent.com/VirtualPatientEngine/AIAgents4Pharma/main/aiagents4pharma/talk2aiagents4pharma/.env.example https://raw.githubusercontent.com/VirtualPatientEngine/AIAgents4Pharma/main/aiagents4pharma/talk2aiagents4pharma/startup.sh
56
56
  ```
57
57
 
58
- Replace `<agent>` with either:
58
+ ###### Talk2KnowledgeGraphs
59
59
 
60
- - `talk2aiagents4pharma`
61
- - `talk2knowledgegraphs`
60
+ ```sh
61
+ mkdir talk2knowledgegraphs && cd talk2knowledgegraphs && wget https://raw.githubusercontent.com/VirtualPatientEngine/AIAgents4Pharma/main/aiagents4pharma/talk2knowledgegraphs/docker-compose.yml https://raw.githubusercontent.com/VirtualPatientEngine/AIAgents4Pharma/main/aiagents4pharma/talk2knowledgegraphs/.env.example https://raw.githubusercontent.com/VirtualPatientEngine/AIAgents4Pharma/main/aiagents4pharma/talk2knowledgegraphs/startup.sh
62
+ ```
62
63
 
63
64
  ##### **2. Setup environment variables**
64
65
 
@@ -142,8 +143,7 @@ If you are using docker on Windows, please follow these [Windows Setup Notes](ht
142
143
  1. **Clone the repository:**
143
144
 
144
145
  ```sh
145
- git clone https://github.com/VirtualPatientEngine/AIAgents4Pharma
146
- cd AIAgents4Pharma
146
+ git clone https://github.com/VirtualPatientEngine/AIAgents4Pharma && cd AIAgents4Pharma
147
147
  ```
148
148
 
149
149
  2. **Install dependencies:**
@@ -254,9 +254,10 @@ git push origin feat/your-feature-name
254
254
 
255
255
  #### Contacts for contributions
256
256
 
257
- - **Talk2Biomodels / Talk2Cells**: [@gurdeep330](https://github.com/gurdeep330), [@lilijap](https://github.com/lilijap), [@dmccloskey](https://github.com/dmccloskey)
258
- - **Talk2KnowledgeGraphs**: [@awmulyadi](https://github.com/awmulyadi), [@dmccloskey](https://github.com/dmccloskey)
259
- - **Talk2Scholars**: [@ansh-info](https://github.com/ansh-info), [@gurdeep330](https://github.com/gurdeep330), [@dmccloskey](https://github.com/dmccloskey)
257
+ - **Talk2Biomodels**: [@lilijap](https://github.com/lilijap), [@gurdeep330](https://github.com/gurdeep330)
258
+ - **Talk2Cells**: [@gurdeep330](https://github.com/gurdeep330)
259
+ - **Talk2KnowledgeGraphs**: [@awmulyadi](https://github.com/awmulyadi)
260
+ - **Talk2Scholars**: [@ansh-info](https://github.com/ansh-info), [@gurdeep330](https://github.com/gurdeep330)
260
261
 
261
262
  Please refer to our [CONTRIBUTING.md](CONTRIBUTING.md) for more detailed contribution guidelines.
262
263
 
{aiagents4pharma-1.39.2 → aiagents4pharma-1.39.3}/aiagents4pharma.egg-info/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.4
2
2
  Name: aiagents4pharma
3
- Version: 1.39.2
3
+ Version: 1.39.3
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
@@ -114,18 +114,19 @@ _We now have all the agents available on Docker Hub._
114
114
 
115
115
  Both agents require [Ollama](https://ollama.com/) to run embedding models like `nomic-embed-text`. We use a **single startup script** that automatically detects your hardware (NVIDIA, AMD, or CPU) and handles container startup, model loading, and service orchestration.
116
116
 
117
- ##### **1. Clone the repository and navigate to the agent directory**
117
+ ##### **1. Download docker-compose.yml, .env.example and startup.sh from GitHub**
118
118
 
119
- ```sh
120
- git clone https://github.com/VirtualPatientEngine/AIAgents4Pharma
119
+ ###### Talk2Agents4Pharma
121
120
 
122
- cd AIAgents4Pharma/aiagents4pharma/<agent>
121
+ ```sh
122
+ mkdir talk2aiagents4pharma && cd talk2aiagents4pharma && wget https://raw.githubusercontent.com/VirtualPatientEngine/AIAgents4Pharma/main/aiagents4pharma/talk2aiagents4pharma/docker-compose.yml https://raw.githubusercontent.com/VirtualPatientEngine/AIAgents4Pharma/main/aiagents4pharma/talk2aiagents4pharma/.env.example https://raw.githubusercontent.com/VirtualPatientEngine/AIAgents4Pharma/main/aiagents4pharma/talk2aiagents4pharma/startup.sh
123
123
  ```
124
124
 
125
- Replace `<agent>` with either:
125
+ ###### Talk2KnowledgeGraphs
126
126
 
127
- - `talk2aiagents4pharma`
128
- - `talk2knowledgegraphs`
127
+ ```sh
128
+ mkdir talk2knowledgegraphs && cd talk2knowledgegraphs && wget https://raw.githubusercontent.com/VirtualPatientEngine/AIAgents4Pharma/main/aiagents4pharma/talk2knowledgegraphs/docker-compose.yml https://raw.githubusercontent.com/VirtualPatientEngine/AIAgents4Pharma/main/aiagents4pharma/talk2knowledgegraphs/.env.example https://raw.githubusercontent.com/VirtualPatientEngine/AIAgents4Pharma/main/aiagents4pharma/talk2knowledgegraphs/startup.sh
129
+ ```
129
130
 
130
131
  ##### **2. Setup environment variables**
131
132
 
@@ -209,8 +210,7 @@ If you are using docker on Windows, please follow these [Windows Setup Notes](ht
209
210
  1. **Clone the repository:**
210
211
 
211
212
  ```sh
212
- git clone https://github.com/VirtualPatientEngine/AIAgents4Pharma
213
- cd AIAgents4Pharma
213
+ git clone https://github.com/VirtualPatientEngine/AIAgents4Pharma && cd AIAgents4Pharma
214
214
  ```
215
215
 
216
216
  2. **Install dependencies:**
@@ -321,9 +321,10 @@ git push origin feat/your-feature-name
321
321
 
322
322
  #### Contacts for contributions
323
323
 
324
- - **Talk2Biomodels / Talk2Cells**: [@gurdeep330](https://github.com/gurdeep330), [@lilijap](https://github.com/lilijap), [@dmccloskey](https://github.com/dmccloskey)
325
- - **Talk2KnowledgeGraphs**: [@awmulyadi](https://github.com/awmulyadi), [@dmccloskey](https://github.com/dmccloskey)
326
- - **Talk2Scholars**: [@ansh-info](https://github.com/ansh-info), [@gurdeep330](https://github.com/gurdeep330), [@dmccloskey](https://github.com/dmccloskey)
324
+ - **Talk2Biomodels**: [@lilijap](https://github.com/lilijap), [@gurdeep330](https://github.com/gurdeep330)
325
+ - **Talk2Cells**: [@gurdeep330](https://github.com/gurdeep330)
326
+ - **Talk2KnowledgeGraphs**: [@awmulyadi](https://github.com/awmulyadi)
327
+ - **Talk2Scholars**: [@ansh-info](https://github.com/ansh-info), [@gurdeep330](https://github.com/gurdeep330)
327
328
 
328
329
  Please refer to our [CONTRIBUTING.md](CONTRIBUTING.md) for more detailed contribution guidelines.
329
330
 
aiagents4pharma-1.39.3/release_version.txt ADDED
@@ -0,0 +1 @@
1
+ v1.39.3
aiagents4pharma-1.39.2/release_version.txt DELETED
@@ -1 +0,0 @@
1
- v1.39.2