Mateusz Pusz 7daee00226 docs: systems reference cache update

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api_reference/src

docs: a large refactoring of TOC

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systems_reference

docs: systems reference cache update

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api_reference.md

docs: a large refactoring of TOC

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bibliography.md

docs: a large refactoring of TOC

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cheat_sheet.md

docs: another link fixed

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glossary.md

docs: a large refactoring of TOC

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index.md

style: pre-commit

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