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I also use Questasim but I have one DO file where all my files are listed in the order necessary for successful compilation.

I never used it but it might be possible to compile separate list1.txt list2.txt files inside the DO file, where list1.txt and list2.txt will contain the various VHDL files. Is this what you are trying to achieve?

But again I am pretty much sure that list1.txt should contain the VHDL files that must be compiled before the files inside the list2.txt. In the end the DO script will just flatten everything out and come up with the final compilation result.

Inside your simulation dir there is file created called "transcript", that is basically your compilation log!