The function `git_reference__is_note` is not declared anywhere. Let's
add the declaration to avoid having non-static functions without
declaration.

When compiling libgit2 with -DDEPRECATE_HARD, we add a preprocessor
definition `GIT_DEPRECATE_HARD` which causes the "git2/deprecated.h"
header to be empty. As a result, no function declarations are made
available to callers, but the implementations are still available to
link against. This has the problem that function declarations also
aren't visible to the implementations, meaning that the symbol's
visibility will not be set up correctly. As a result, the resulting
library may not expose those deprecated symbols at all on some platforms
and thus cause linking errors.

Fix the issue by conditionally compiling deprecated functions, only.
While it becomes impossible to link against such a library in case one
uses deprecated functions, distributors of libgit2 aren't expected to
pass -DDEPRECATE_HARD anyway. Instead, users of libgit2 should manually
define GIT_DEPRECATE_HARD to hide deprecated functions. Using "real"
hard deprecation still makes sense in the context of CI to test we don't
use deprecated symbols ourselves and in case a dependant uses libgit2 in
a vendored way and knows it won't ever use any of the deprecated symbols
anyway.

We're missing some header includes leading to missing function
prototypes. While we currently don't warn about these, we should have
their respective headers included in order to detect the case where a
function signature change results in an incompatibility.

We've accumulated quite some functions which are never used outside of
their respective code unit, but which are lacking the `static` keyword.
Add it to reduce their linkage scope and allow the compiler to optimize
better.

We have some functions which aren't used anywhere. Let's remove them to
get rid of unneeded baggage.