[R] using mclapply (multi core apply) to do matrix multiplication
Ernest Adrogué
nfdisco at gmail.com
Tue Feb 7 11:02:54 CET 2012
7-02-2012, 00:29 (-0800); Alaios escriu:
> Dear all, I am trying to multiply three different matrices and each
> matrice is of size 16384,16384 the normal %*% multiplciation
> operator has not finished one day now. As I am running a system with
> many cores (and it seems that R is using only one of those) I would
> like to write fast a brief function that converts the typical for
> loops of a matrix multiplication to a set of lapply sets (mclapply
> uses the lapply syntax but it applies the work to many cores).
>
> If my thinking is correct , in the sense that this will speed up
> things a lot, I want you to help me covert the first matrix in rows
> the second in columns and convert those in a format that lapply
> would like to work with.
If I understand correctly, R uses a specialized library called BLAS to
do matrix multiplications. I doubt re-implementing the matrix
multiplication code at R-level would be any faster. What you can try
is replace BLAS with a multicore version of BLAS although it's not
easy if you have to compile it yourself.
Also, you may try to re-think the problem you're trying to solve.
Maybe there's a different approach that is less computation-intensive.
--
Cheers,
Ernest
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