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Octree-based geometry tool#782

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rupertnash wants to merge 19 commits intomainhemelb-codes/hemelb:mainfrom oct-rebasehemelb-codes/hemelb:oct-rebaseCopy head branch name to clipboard

+6,536-454

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Commits on Mar 4, 2024

• gmy: prepare for Oct implementation by prefixing with Gmy

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  3f4b2f4

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• Drop in the oct-gmy branch. Merge/rebase was impossible

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  0104b71

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• rename include guards to geometry tool

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• import oct-gmy tests

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• Slight modernisation of H5 wrapper and simple test

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  fe16463

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• drop in python oct stuff

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• update CI copyright/include checking scripts

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• run clang format on gmy tool

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• install catch in CI

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• Require newer GCC in CI

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• link against thread lib

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• work around old GNU stdlib

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• octree getcreate now works when this is the correct answer

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• fix errors in H5 close methods because I forgot how destructors work

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• gmy-tool: Work to enable the 2 extensions to coexist

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• Adapt the gmytool python to cope with 2 generators (only gmy works)

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• gmytool: rationalise the pipeline debugging

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• reenable some gmytool regression tests; the cylinder clipping is wrong

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• gmytool: change linking of vtk slightly

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