Makefile: move dependency rules for autogenerated files

Explicit dependency rules are needed when a source file depends on an
autogenerated file. Move these rules to the same place in the Makefile
as the rules for creating the generated files.

Also, change the rules to declare the direct dependency, not a
transitive one (e.g. codecs.conf.h is needed by codec-cfg.c, not
codec-cfg.o). In practice, this shouldn't change anything, but it's
cleaner.

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