Juergen Rose wrote:

> What are the differences between blas-reference, blas-atlas and
> blas-goto.

They are different. The reference BLAS is (relatively) slow; the other ones 
are fast. If you’re happy with the performance of the reference BLAS, or 
don’t use much matrix algebra-dependent code, there is no reason to switch, 
though.

> And what will happen with the other blas depended packages
> as
> 
> apbs, gromacs, grass, arpack, ccp4-libs and umfpack,
> 
> if I switch to blas-goto? Do you have some insight?

See the R Installation and Administration manual
http://cran.r-project.org/doc/manuals/R-admin.html#BLAS
and especially
http://cran.r-project.org/doc/manuals/R-admin.html#Shared-BLAS

-- 
Karl Ove Hufthammer

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