Feature/ontology mapping#16

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jmikedupont2 wants to merge 35 commits intofeature/cliffordfrom

feature/ontology-mapping

Commits on Jul 16, 2025

Feat: Implement ontology mapping for codebase and phases
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update
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update submodules
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Commits on Jul 17, 2025

wip
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compiles
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Commits on Jul 18, 2025

prepare for fix
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prepare for fix
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cargo fix
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wip
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fixing errors
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making tracks
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making tracks
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removing bloat
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removing bloat
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now to refactor
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docu updates
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update
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update
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wip
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wip
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refactor
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start of bootstrap
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fix
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udpate
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wip
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model switch
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model switch
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updates
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updates
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wip broken
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Commits on Jul 19, 2025

wip
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wip
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built
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docs: Update GEMINI.md with bootstrap build and test results
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ontologies being created
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