Cubius - 1 year ago 103

Python Question

I have a 256x256 numpy-array of data which is constantly being changed. on every iteration I take a snapshot to make a movie. snapshot is a 3d surface plot made using

`matplotlib`

The problem is that plotting costs me >2 seconds on every iteration which is about 600 seconds for 250 iterations. I had the same program running in MATLAB and it was 80-120 seconds for the same number of iterations.

The question: are there ways to speed up

`matplotlib`

Here is some of the code:

`## initializing plot`

fig = plt.figure(111)

fig.clf()

ax = fig.gca(projection='3d')

X = np.arange(0, field_size, 1)

Y = np.arange(0, field_size, 1)

X, Y = np.meshgrid(X, Y)

## the loop

start_time = time.time()

for k in xrange(250):

it_time = time.time()

field[128,128] = maxvalue

field = scipy.ndimage.convolve(field, kernel)

print k, " calculation: ", time.time() - it_time, " seconds"

it_time = time.time()

ax.cla()

ax.plot_surface(X, Y, field.real, rstride=4, cstride=4, cmap=cm.hot,

linewidth=0, antialiased=False)

ax.set_zlim3d(-50, 150)

filename = "out_%d.png" % k

fig.savefig(filename)

#fig.clf()

print k, " plotting: ", time.time() - it_time, " seconds"

print "computing: ", time.time() - start_time, " seconds"

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Answer Source

**GNUplot** (accessed through it's various python interfaces) may be faster. At least I knew someone a few years ago with a similar problem to yours and after testing a number of packages they went with GNUplot. It's not nearly as good looking as matplotlib though.

Also, I assume you have interactive mode turned off.

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