Re: fastest way to read a text file in to a numpy array

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From	Michael Selik <michael.selik@gmail.com>
Newsgroups	comp.lang.python
Subject	Re: fastest way to read a text file in to a numpy array
Date	Tue, 28 Jun 2016 14:29:56 +0000
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On Tue, Jun 28, 2016 at 10:08 AM Hedieh Ebrahimi <hemla21@gmail.com> wrote:

> File 1 has :
> x1,y1,z1
> x2,y2,z2
> ....
>
> and file2 has :
> x1,y1,z1,value1
> x2,y2,z2,value2
> x3,y3,z3,value3
> ...
>
> I need to read the coordinates from file 1 and then interpolate a value
> for these coordinates on file 2 to the closest coordinate possible. The
> problem is file 2 is has around 5M lines. So I was wondering what would be
> the fastest approach?
>

Is this a one-time task, or something you'll need to repeat frequently?
How many points need to be interpolated?
How do you define distance? Euclidean 3d distance? K-nearest?

5 million can probably fit into memory, so it's not so bad.

NumPy is a good option for broadcasting the distance function across all 5
million labeled points for each unlabeled point. Given that file format,
NumPy can probably read from file directly into an array.

http://stackoverflow.com/questions/3518778/how-to-read-csv-into-record-array-in-numpy

Thread

fastest way to read a text file in to a numpy array Heli <hemla21@gmail.com> - 2016-06-28 06:45 -0700
  Re: fastest way to read a text file in to a numpy array Michael Selik <michael.selik@gmail.com> - 2016-06-28 14:00 +0000
  Re: fastest way to read a text file in to a numpy array Michael Selik <michael.selik@gmail.com> - 2016-06-28 14:29 +0000
  Re: fastest way to read a text file in to a numpy array Cody Piersall <cody.piersall@gmail.com> - 2016-06-28 09:37 -0500
    Re: fastest way to read a text file in to a numpy array Heli <hemla21@gmail.com> - 2016-06-30 08:49 -0700
      Re: fastest way to read a text file in to a numpy array Christian Gollwitzer <auriocus@gmx.de> - 2016-06-30 23:02 +0200

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