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This was less complex than I feared. Test case
only_messages
shows how this works.I find the whole process of deciding what to run to be hard to understand. Here I change the decision to run breathe based on the existence of the doxygen output, while previously it was done based on build type. Both seem a little too much like black magic to me. I feel like it could use a refactoring, but maybe the complexity is just inherent and hard to improve.
Fixes #54