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Doxyfile.in needs to be updated #2376

@edwardhartnett

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@edwardhartnett

The Doxyfile.in is old and does not include all the options now supported by doxygen.

This is necessary before #2365 can be accomplished.

The Doxyfile.in can be updated with doxygen -u Doxyfile.in. We want to use the same version of doxygen as is being used in the CI.

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