X11 and XFree86 were initially developed on Unix-based systems. Usually Unix systems provide a rich number of tools and utilities to get certain things done. Under OS/2, these tools are not installed, but ports are available which are sometimes functionally equivalent to Unix utilities with the same name, but also differ sometimes in a subtle way. This guide will give you hints if you intend to rebuild the system from scratch under OS/2.
Please also read README.OS2 for end-user information, and set at least the environment variables described there.
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