Major code refactoring and various cosmetic changes#11

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StefanFlaumberg wants to merge 5 commits intoBenoitMorel:mainfrom StefanFlaumberg:main

+2,583-1,941

Commits on Oct 28, 2024

Major refactoring and better checkpointing
StefanFlaumberg
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Fix rate mixture optimization, fix mpi freezing on reldating, add checkpoints for the mixture alpha and highways
StefanFlaumberg
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Better output files
StefanFlaumberg
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Commits on Nov 3, 2024

Merge branch 'main' into main
StefanFlaumberg
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Commits on Nov 24, 2024

Fix parameter indexing in checkpoints
StefanFlaumberg
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