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Migrating the build process of the _cmd and _champ libraries from the setup.py file to CMake - #398

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ye11owSub wants to merge 6 commits into
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ye11owSub:refactor_setup_script
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Migrating the build process of the _cmd and _champ libraries from the setup.py file to CMake#398
ye11owSub wants to merge 6 commits into
schrodinger:masterfrom
ye11owSub:refactor_setup_script

splitting compiler/platform-specific flags into corresponding files

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