[Numpy-discussion] Calculating density based on distance
Thiago Franco de Moraes
totonixsame at gmail.com
Sat Jan 14 15:52:55 EST 2012
Hi all,
I have the following problem:
Given a array with dimension Nx3, where N is generally greater than
1.000.000, for each item in this array I have to calculate its density,
Where its density is the number of items from the same array with
distance less than a given r. The items are the rows from the array.
I was not able to think a solution to this using one or two functions of
Numpy. Then I wrote this code http://pastebin.com/iQV0bMNy . The problem
it so slow. So I tried to implement it in Cython, here the result
http://pastebin.com/zTywzjyM , but it is very slow yet.
Is there a better and faster way of doing that? Is there something in my
Cython implementation I can do to perform better?
Thanks!
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