graphaide 0.4.1__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 (140) hide show
  1. graphaide-0.4.1/.coveragerc +28 -0
  2. graphaide-0.4.1/.dockerignore +72 -0
  3. graphaide-0.4.1/.gitignore +81 -0
  4. graphaide-0.4.1/.readthedocs.yml +27 -0
  5. graphaide-0.4.1/ARCHITECTURE.md +625 -0
  6. graphaide-0.4.1/AUTHORS.rst +5 -0
  7. graphaide-0.4.1/CHANGELOG.rst +10 -0
  8. graphaide-0.4.1/CLAUDE.md +101 -0
  9. graphaide-0.4.1/CONTRIBUTING.rst +353 -0
  10. graphaide-0.4.1/DISCLAIMER +23 -0
  11. graphaide-0.4.1/Dockerfile +43 -0
  12. graphaide-0.4.1/Dockerfile.dev +46 -0
  13. graphaide-0.4.1/LICENSE.txt +23 -0
  14. graphaide-0.4.1/MANIFEST.in +3 -0
  15. graphaide-0.4.1/PKG-INFO +191 -0
  16. graphaide-0.4.1/QUICKSTART.md +443 -0
  17. graphaide-0.4.1/README.md +114 -0
  18. graphaide-0.4.1/README.rst +49 -0
  19. graphaide-0.4.1/REFERENCE.md +594 -0
  20. graphaide-0.4.1/TODO.md +194 -0
  21. graphaide-0.4.1/agent_config.json +28 -0
  22. graphaide-0.4.1/api_updated_example.py +324 -0
  23. graphaide-0.4.1/cli_updated_example.py +246 -0
  24. graphaide-0.4.1/config-extract.json +7 -0
  25. graphaide-0.4.1/config.example.json +24 -0
  26. graphaide-0.4.1/convert_ontology.py +44 -0
  27. graphaide-0.4.1/data/PNNL.out.json +244 -0
  28. graphaide-0.4.1/data/PNNL.rs-OntoKG.json +97 -0
  29. graphaide-0.4.1/data/PNNL.rs.txt +19 -0
  30. graphaide-0.4.1/data/PNNL.rsOntoKG.json +115 -0
  31. graphaide-0.4.1/data/PNNL.txt +25 -0
  32. graphaide-0.4.1/data/PNNL22.rs-OntoKG.json +131 -0
  33. graphaide-0.4.1/data/PNNLDay.out.json +219 -0
  34. graphaide-0.4.1/data/PNNL_About.pdf +0 -0
  35. graphaide-0.4.1/data/RGTnseqData.txt +4 -0
  36. graphaide-0.4.1/data/cyberkg.json +141 -0
  37. graphaide-0.4.1/data/cyberkg.txt +21 -0
  38. graphaide-0.4.1/data/experiments.pdf +1175 -10
  39. graphaide-0.4.1/docker-compose.dev.yml +74 -0
  40. graphaide-0.4.1/docker-compose.override.yml.example +41 -0
  41. graphaide-0.4.1/docker-compose.yml +75 -0
  42. graphaide-0.4.1/docs/Makefile +29 -0
  43. graphaide-0.4.1/docs/_static/.gitignore +1 -0
  44. graphaide-0.4.1/docs/authors.rst +2 -0
  45. graphaide-0.4.1/docs/changelog.rst +2 -0
  46. graphaide-0.4.1/docs/conf.py +286 -0
  47. graphaide-0.4.1/docs/contributing.rst +1 -0
  48. graphaide-0.4.1/docs/index.rst +61 -0
  49. graphaide-0.4.1/docs/license.rst +7 -0
  50. graphaide-0.4.1/docs/readme.rst +2 -0
  51. graphaide-0.4.1/docs/requirements.txt +5 -0
  52. graphaide-0.4.1/embedding_visualization.png +0 -0
  53. graphaide-0.4.1/examples_workflows.py +313 -0
  54. graphaide-0.4.1/graphaide_docker_build.sh +195 -0
  55. graphaide-0.4.1/pyproject.toml +9 -0
  56. graphaide-0.4.1/run_graph_aide.py +165 -0
  57. graphaide-0.4.1/scripts/windows/graphaide_docker_build.ps1 +139 -0
  58. graphaide-0.4.1/scripts/windows/start-graphaide-dev.ps1 +146 -0
  59. graphaide-0.4.1/scripts/windows/start-graphaide-prod.ps1 +153 -0
  60. graphaide-0.4.1/setup.cfg +132 -0
  61. graphaide-0.4.1/setup.py +29 -0
  62. graphaide-0.4.1/src/graphaide.egg-info/PKG-INFO +191 -0
  63. graphaide-0.4.1/src/graphaide.egg-info/SOURCES.txt +139 -0
  64. graphaide-0.4.1/src/graphaide.egg-info/dependency_links.txt +1 -0
  65. graphaide-0.4.1/src/graphaide.egg-info/entry_points.txt +2 -0
  66. graphaide-0.4.1/src/graphaide.egg-info/not-zip-safe +1 -0
  67. graphaide-0.4.1/src/graphaide.egg-info/requires.txt +52 -0
  68. graphaide-0.4.1/src/graphaide.egg-info/scm_file_list.json +134 -0
  69. graphaide-0.4.1/src/graphaide.egg-info/scm_version.json +8 -0
  70. graphaide-0.4.1/src/graphaide.egg-info/top_level.txt +1 -0
  71. graphaide-0.4.1/src/graphgen/__init__.py +16 -0
  72. graphaide-0.4.1/src/graphgen/api.py +463 -0
  73. graphaide-0.4.1/src/graphgen/cli.py +747 -0
  74. graphaide-0.4.1/src/graphgen/core.py +713 -0
  75. graphaide-0.4.1/src/graphgen/v2/GraphDBManager.py +116 -0
  76. graphaide-0.4.1/src/graphgen/v2/ModelManager.py +225 -0
  77. graphaide-0.4.1/src/graphgen/v2/VectorStoreManager.py +148 -0
  78. graphaide-0.4.1/src/graphgen/v2/__init__.py +5 -0
  79. graphaide-0.4.1/src/graphgen/v2/agents/AgentManager.py +193 -0
  80. graphaide-0.4.1/src/graphgen/v2/agents/__init__.py +87 -0
  81. graphaide-0.4.1/src/graphgen/v2/agents/base.py +125 -0
  82. graphaide-0.4.1/src/graphgen/v2/agents/edgesloader.py +140 -0
  83. graphaide-0.4.1/src/graphgen/v2/agents/edgetable2textgenerator.py +65 -0
  84. graphaide-0.4.1/src/graphgen/v2/agents/embeddingprojector.py +129 -0
  85. graphaide-0.4.1/src/graphgen/v2/agents/embeddingvisualizer.py +231 -0
  86. graphaide-0.4.1/src/graphgen/v2/agents/extractmerger.py +182 -0
  87. graphaide-0.4.1/src/graphgen/v2/agents/extractor.py +488 -0
  88. graphaide-0.4.1/src/graphgen/v2/agents/intentpredictor.py +51 -0
  89. graphaide-0.4.1/src/graphgen/v2/agents/neo4jloader.py +119 -0
  90. graphaide-0.4.1/src/graphgen/v2/agents/neo4jpostprocessor.py +178 -0
  91. graphaide-0.4.1/src/graphgen/v2/agents/neo4jqueryrunner.py +82 -0
  92. graphaide-0.4.1/src/graphgen/v2/agents/nodes4edgesloader.py +151 -0
  93. graphaide-0.4.1/src/graphgen/v2/agents/nodesloader.py +131 -0
  94. graphaide-0.4.1/src/graphgen/v2/agents/ontologygenerator.py +251 -0
  95. graphaide-0.4.1/src/graphgen/v2/agents/ontologyloader.py +173 -0
  96. graphaide-0.4.1/src/graphgen/v2/agents/questiongraphgenerator.py +52 -0
  97. graphaide-0.4.1/src/graphgen/v2/agents/simpleagent.py +55 -0
  98. graphaide-0.4.1/src/graphgen/v2/agents/simplerag.py +90 -0
  99. graphaide-0.4.1/src/graphgen/v2/agents/textaugmentor.py +60 -0
  100. graphaide-0.4.1/src/graphgen/v2/agents/vectordbloader.py +1441 -0
  101. graphaide-0.4.1/src/graphgen/v2/docs/GA_VDB/6fc79c82-1c20-4a02-bb10-71dcaf3a17d7/data_level0.bin +0 -0
  102. graphaide-0.4.1/src/graphgen/v2/docs/GA_VDB/6fc79c82-1c20-4a02-bb10-71dcaf3a17d7/header.bin +0 -0
  103. graphaide-0.4.1/src/graphgen/v2/docs/GA_VDB/6fc79c82-1c20-4a02-bb10-71dcaf3a17d7/length.bin +0 -0
  104. graphaide-0.4.1/src/graphgen/v2/docs/GA_VDB/6fc79c82-1c20-4a02-bb10-71dcaf3a17d7/link_lists.bin +0 -0
  105. graphaide-0.4.1/src/graphgen/v2/docs/GA_VDB/chroma.sqlite3 +0 -0
  106. graphaide-0.4.1/src/graphgen/v2/functionnode.py +272 -0
  107. graphaide-0.4.1/src/graphgen/v2/globalconfig.py +55 -0
  108. graphaide-0.4.1/src/graphgen/v2/mcp_server.py +40 -0
  109. graphaide-0.4.1/src/graphgen/v2/query.py +0 -0
  110. graphaide-0.4.1/src/graphgen/v2/state.py +409 -0
  111. graphaide-0.4.1/src/graphgen/v2/tools.py +339 -0
  112. graphaide-0.4.1/src/graphgen/v2/utils/__init__.py +238 -0
  113. graphaide-0.4.1/src/graphgen/v2/utils/image_utils.py +184 -0
  114. graphaide-0.4.1/src/graphgen/v2/utils.py +175 -0
  115. graphaide-0.4.1/src/graphgen/v2/workflows/KGIngest.py +84 -0
  116. graphaide-0.4.1/src/graphgen/v2/workflows/__init__.py +71 -0
  117. graphaide-0.4.1/src/graphgen/v2/workflows/base.py +244 -0
  118. graphaide-0.4.1/src/graphgen/v2/workflows/manager.py +1195 -0
  119. graphaide-0.4.1/src/graphgen/v2/workflows/retriever_factory.py +204 -0
  120. graphaide-0.4.1/src/graphgen/v2/workflows/schemas.py +435 -0
  121. graphaide-0.4.1/src/graphgen/v2/workflows/utils.py +274 -0
  122. graphaide-0.4.1/start-graphaide-dev.sh +124 -0
  123. graphaide-0.4.1/start-graphaide-prod.sh +131 -0
  124. graphaide-0.4.1/templates/edgesloader.template +31 -0
  125. graphaide-0.4.1/templates/edgetable2textgenerator.template +26 -0
  126. graphaide-0.4.1/templates/extractor.template +59 -0
  127. graphaide-0.4.1/templates/extractor_ontology.template +11 -0
  128. graphaide-0.4.1/templates/intentpredictor.template +36 -0
  129. graphaide-0.4.1/templates/neo4jloader.template +2 -0
  130. graphaide-0.4.1/templates/nodes4edgesloader.template +85 -0
  131. graphaide-0.4.1/templates/nodesloader.template +56 -0
  132. graphaide-0.4.1/templates/questiongraphgenerator.template +19 -0
  133. graphaide-0.4.1/templates/simplerag.template +12 -0
  134. graphaide-0.4.1/templates/textaugmentor.template +28 -0
  135. graphaide-0.4.1/tests/__pycache__/conftest.cpython-311-pytest-8.4.1.pyc.66736 +0 -0
  136. graphaide-0.4.1/tests/notebooks/GraphAideLogo_Label_Final.png +0 -0
  137. graphaide-0.4.1/tests/notebooks/amazon_neptune.txt +2 -0
  138. graphaide-0.4.1/tests/test_qdrant_image_demo.py +241 -0
  139. graphaide-0.4.1/tests/test_skeleton.py +25 -0
  140. graphaide-0.4.1/tox.ini +93 -0
@@ -0,0 +1,28 @@
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+ # .coveragerc to control coverage.py
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+ [run]
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+ branch = True
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+ source = graphaide
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+ # omit = bad_file.py
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+
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+ [paths]
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+ source =
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+ src/
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+ */site-packages/
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+
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+ [report]
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+ # Regexes for lines to exclude from consideration
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+ exclude_lines =
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+ # Have to re-enable the standard pragma
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+ pragma: no cover
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+
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+ # Don't complain about missing debug-only code:
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+ def __repr__
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+ if self\.debug
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+
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+ # Don't complain if tests don't hit defensive assertion code:
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+ raise AssertionError
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+ raise NotImplementedError
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+
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+ # Don't complain if non-runnable code isn't run:
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+ if 0:
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+ if __name__ == .__main__.:
@@ -0,0 +1,72 @@
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+ # Git
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+ .git
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+ .gitignore
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+
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+ # Python
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+ __pycache__
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+ *.py[cod]
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+ *$py.class
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+ *.so
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+ .Python
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+ build/
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+ develop-eggs/
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+ dist/
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+ downloads/
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+ eggs/
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+ .eggs/
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+ lib/
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+ lib64/
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+ parts/
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+ sdist/
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+ var/
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+ wheels/
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+ *.egg-info/
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+ .installed.cfg
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+ *.egg
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+
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+ # Virtual environments and secrets
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+ .env
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+ .env.*
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+ .venv
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+ env/
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+ venv/
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+ ENV/
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+ config-prod-*.json
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+ config-dev-*.json
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+
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+ # IDE
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+ .idea/
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+ .vscode/
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+ *.swp
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+ *.swo
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+ .claude/
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+
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+ # Testing
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+ .tox/
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+ .nox/
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+ .coverage
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+ .coverage.*
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+ htmlcov/
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+ .pytest_cache/
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+ .hypothesis/
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+
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+ # Docs
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+ docs/_build/
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+
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+ # Data files (will be mounted as volumes)
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+ *.npy
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+ *.duckdb
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+ *.pdf
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+
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+ # Jupyter
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+ .ipynb_checkpoints/
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+ *.ipynb
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+ tests/notebooks/
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+
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+ # OS
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+ .DS_Store
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+ Thumbs.db
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+
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+ # Local data
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+ data/
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+ chroma/
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+ # Temporary and binary files
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+ *~
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+ *.py[cod]
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+ *.so
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+ *.cfg
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+ !.isort.cfg
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+ !setup.cfg
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+ *.orig
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+ *.log
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+ *.pot
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+ __pycache__/*
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+ .cache/*
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+ .*.swp
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+ */.ipynb_checkpoints/*
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+ .DS_Store
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+
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+ # Project files
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+ .ropeproject
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+ .project
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+ .pydevproject
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+ .settings
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+ .idea
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+ .vscode
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+ tags
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+
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+ # Package files
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+ *.egg
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+ *.eggs/
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+ .installed.cfg
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+ *.egg-info
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+
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+ # Unittest and coverage
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+ htmlcov/*
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+ .coverage
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+ .coverage.*
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+ .tox
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+ junit*.xml
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+ coverage.xml
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+ .pytest_cache/
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+
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+ # Build and docs folder/files
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+ build/*
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+ dist/*
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+ sdist/*
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+ docs/api/*
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+ docs/_rst/*
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+ docs/_build/*
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+ cover/*
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+ MANIFEST
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+ data/*.py
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+ .tests/notebooks/docs/*
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+ .tests/notebooks/GA_VDB_PATH/*
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+ .tests/notebooks/docs/GA_VDB/*
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+ .tests/notebooks/{ATO*,cybersage*,*TechFest*,vast*,demoGraphAide*}
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+ .tests/notebooks/*.{npy,nt,json,pdf}
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+ .tests/docs/chroma/*
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+ .tests/docs/chroma/chroma.sqlite3
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+ .claude/*
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+ ./*.{ttl,nt,owl,TODO.md}
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+ .local_vectorstores*/
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+ .local_vectorstores/*
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+
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+ # Per-project virtualenvs
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+ .venv*/
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+ .conda*/
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+ .python-version
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+
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+ .env
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+ .env.*
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+ .hideenv
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+
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+ # Configuration files (local/prod specific, never commit)
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+ config-prod-*.json
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+ config-dev-*.json
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+ config.local.py
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+
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+ # Docker Compose local overrides
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+ docker-compose.override.yml
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+
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+ # Session history files (keep locally, don't commit)
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+ SESSION_HISTORY_*.md
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+ # Read the Docs configuration file
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+ # See https://docs.readthedocs.io/en/stable/config-file/v2.html for details
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+
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+ # Required
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+ version: 2
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+
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+ # Build documentation in the docs/ directory with Sphinx
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+ sphinx:
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+ configuration: docs/conf.py
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+
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+ # Build documentation with MkDocs
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+ #mkdocs:
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+ # configuration: mkdocs.yml
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+
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+ # Optionally build your docs in additional formats such as PDF
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+ formats:
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+ - pdf
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+
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+ build:
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+ os: ubuntu-22.04
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+ tools:
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+ python: "3.11"
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+
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+ python:
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+ install:
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+ - requirements: docs/requirements.txt
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+ - {path: ., method: pip}