Deprecate ./setup folder

[lsawade]

Task description

Write a list of things that need to be completed to achieve the goal of this issue.

• specfem_setup.hpp.in -> core/specfem/setup.hpp.in
• constants.hpp.in -> core/specfem/constants.hpp, should be plain hpp not configure file, since the configure variables are not being used.
• deprecate globals.hpp, None of the variables are being used

The configuration for setup.hpp.in should go into the cmakelists in core/specfem. The configured file should be into the configured file into /include/specfem/setup.hpp

Acceptance criteria

• project builds with new configuration and deprecated setup