That is great, thanks! I do not have the mkl module (it isn't free,
right?) but with your script the calculation is approx. 10 times
faster than in R. Is there a way to increase performance using Cython,
BLAS and LAPACK? Could you possibly show some examples of how to do
it?
Thank you very much
If you're affiliated with a university, Anaconda has free academic
licenses that include MKL and their optimized builds.
Vlad
On Mon Feb 24 09:22:07 2014, Javier Martínez-López wrote:
That is great, thanks! I do not have the mkl module (it isn't free,
right?) but with your script the
Thank you very much! Already working!
However, contrasting with the results obtained by Sturla, I get the
fastest result with cholesky, parallel method:
bash-4.1$ python mahalk.py
Similar result to scipy.spatial.distance.mahalanobis: true
Similar results with and without parallel execution: true
Javier Martínez-López
javi.martinez.lo...@gmail.com wrote:
That is great, thanks! I do not have the mkl module (it isn't free,
right?) but with your script the calculation is approx. 10 times
faster than in R.
Great!
By the way, using OpenBLAS will be fast as well.
On Mac OS X Mavericks
Sturla Molden sturla.mol...@gmail.com
wrote:
Yes there is! We can make a very cache friendly loop by iterating over
DTRSV instead of using DTRTRS as this example does. That also avoids
temporary variables, and we can multithread the call to DTRSV.
Just a tiny comment on this: It might be
Sturla Molden sturla.mol...@gmail.com
wrote:
Just a tiny comment on this: It might be easier for the LAPACK library to
use SIMD extensions (SSE2, SSE3, AVX) if we use DTRTRS. So we need to
benchmark with relevant matrix sizes to see which strategy is the better.
One is better for SIMD, the
On 24/02/14 16:11, Javier Martínez-López wrote:
I am sorry Sturla but I am new in python and I cannot follow you on
this... hopefully someone else will! I am now combining the R and the
Python code and trying to scale up the process! Thank you very much
and cheers, Javier
This would be
Hello,
I am quite new to python, so I am sorry if I am asking something too
simple: I am trying to speed up a raster processing with python and I
want to use the sklearn.metrics.pairwise.pairwise_distances module
with the mahalanobis distance metric and the n_jobs=-1 in order to
speed up the
On 21/02/14 14:07, Javier Martínez-López wrote:
Hello,
I am quite new to python, so I am sorry if I am asking something too
simple: I am trying to speed up a raster processing with python and I
want to use the sklearn.metrics.pairwise.pairwise_distances module
with the mahalanobis distance
