mlab | level python to Matlab bridge that lets Matlab look | Audio Utils library

Here is how I would present this 3-dimensional data. Each plot is a cross-section through the cube. This makes sense intuitively.

I missed a dependency, qt5-default. I ended up having these lines for Mayavi running on Docker/CircleCi:

From mayavi documentation:

Starting from Mayavi version 3.4.0, the mlab screenshot() can be used to take a screenshot of the current figure, to integrate in a matplotlib plot.

So one can actually totally bypass the code relative to BytesIO, and directly invoke the imagio writer with writer.append_data(mlab.screenshot()):

Here I've shown the code to plot a cube and animate it so that it grows out from a height of 0.01 to a height of 1 using mlab.mesh. What yield does is that it returns control to the decorator so that the scene can be updated.

I strongly suspect that your data, while on a grid, is not ordered so as to allow a simple reshape of the values. You have two solutions available, both involving reordering the data in different ways.

Solution 1

Since you're already using np.unique to extract the grid, you can get the correct ordering of vs using the return_inverse parameter:

The answer is actually quite simple: mlab.outline(). One has to replace the contour plotting part with the following code:

No idea why I forgot to implement annosym in addpoly.default() and addpoly.rma() but this has now been added. So if you grab the 'development' version of metafor as described here:

https://github.com/wviechtb/metafor#installation

then it should work.

One other issue if you add polygons like this: The alignment is off because less space is needed for the annotations corresponding to that last polygon. You can use:

Thank you Daniel Althviz for the hint.

This solution solved the problem:

There is an option for ax.imshow() that allows to specify the origin point.

https://matplotlib.org/stable/api/_as_gen/matplotlib.pyplot.imshow.html

origin{'upper', 'lower'}, default: rcParams["image.origin"] (default: 'upper') Place the [0, 0] index of the array in the upper left or lower left corner of the Axes. The convention (the default) 'upper' is typically used for matrices and images.

Note that the vertical axis points upward for 'lower' but downward for 'upper'.

See the origin and extent in imshow tutorial for examples and a more detailed description.

Try to modify to this: