How to read matlab array in python using h5py

Question

i have a matlab array > 2GB ... i want to read it using h5py. The data is a simple 3D double array. But i simply couldn't find a clue on the internet.

Can someone help me ? I just need an example, how it's done. The h5py documentation couldn't help me.

Someone answered [here](http://stackoverflow.com/questions/874461/read-mat-files-in-python) (see second answer) — Ricardo Cárdenes, Jan 31 '14 at 12:51
Ok, got it. I didn't use option 'r' and overwrote the file with nothing :S Now it works ! Thanks ! — reBourne, Jan 31 '14 at 13:06
I'll answer anyway, as the other question specifies ".mat" files — Ricardo Cárdenes, Jan 31 '14 at 13:18

score 3 · Answer 1 · edited May 23 '17 at 11:54

This question has been answered before, but refering to .mat files. As @vikrantt said here -I'm copying his example code,- recent versions of Matlab save to HDF5 format and those you can just:

import numpy as np, h5py 
f = h5py.File('somefile.mat','r') 
data = f.get('data/variable1') # Get a certain dataset
data = np.array(data)

Note that this is covered in h5py's own documentation about it's high level API. I'd recommend reading Group Objects to understand better how to extract information from the file, and then Numpy Compatibility

score 3 · Answer 2 · edited May 23 '17 at 11:46

3

An alternative using dictionary syntax:

import h5py
f = h5py.File('somefile.mat','r')
myvar = f['myvar'].value

To load all values look at: https://stackoverflow.com/a/29856030/1615523

edited May 23 '17 at 11:46

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answered Oct 08 '16 at 20:17

Sam Inverso

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How to read matlab array in python using h5py

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