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Represent the input file path internally in canonical form. Otherwise
multiple `configure_file` calls that share the same input file but specify
it relative to different directories (e.g. via `../`) result in multiple
copies of the dependency on the rule to re-run CMake. This causes the
Ninja generator to emit duplicate phony build statements for these
dependencies, which generates an error with `-w dupbuild=err`, which
will be default in Ninja 1.9.
Also canonicalize the output path for consistency.
Add a test case.
Fixes: #18584
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