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Automake's automatic header deptracking has a bootstrap problem where it can't detect generated headers when compiling. We've been handling that by adding a custom SIM_ALL_RECURSIVE_DEPS variable, but that only works when building objects recursively in subdirs. As we move those out to the top-level, we don't have any recursive steps anymore. The Automake approach is to declare those headers in BUILT_SOURCES. This isn't completely foolproof as the Automake manual documents: it only activates for `make all`, not `make foo.o`, but that shouldn't be a huge limitation as it only affects the initial compile. After that, rebuilds should work fine.