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A major problem that I already mentioned on sage-devel is that ATLAS produces 2 libraries: libf77blas for fortran and libcblas for C. GOTOBlas is only producing libf77blas. lapack is perfectly happy with libf77blas as it is a fortran library. However most of the packages in sage and sage itself require libcblas.
So to use GOTOBlas instead of atlas you need to produce an extra layer that will translate fortran to C, or recode a substantial portion of sage to use libf77blas. Whichever way you want to go, that's a big amount of work.
