pyqtgraph/examples/GLVolumeItem.py

# -*- coding: utf-8 -*-
"""
Demonstrates GLVolumeItem for displaying volumetric data.

"""

## Add path to library (just for examples; you do not need this)
import initExample

import pyqtgraph as pg
from pyqtgraph.Qt import QtCore, QtGui
import pyqtgraph.opengl as gl

app = pg.mkQApp("GLVolumeItem Example")
w = gl.GLViewWidget()
w.opts['distance'] = 200
w.show()
w.setWindowTitle('pyqtgraph example: GLVolumeItem')

#b = gl.GLBoxItem()
#w.addItem(b)
g = gl.GLGridItem()
g.scale(10, 10, 1)
w.addItem(g)

import numpy as np
## Hydrogen electron probability density
def psi(i, j, k, offset=(50,50,100)):
    x = i-offset[0]
    y = j-offset[1]
    z = k-offset[2]
    th = np.arctan2(z, (x**2+y**2)**0.5)
    phi = np.arctan2(y, x)
    r = (x**2 + y**2 + z **2)**0.5
    a0 = 2
    #ps = (1./81.) * (2./np.pi)**0.5 * (1./a0)**(3/2) * (6 - r/a0) * (r/a0) * np.exp(-r/(3*a0)) * np.cos(th)
    ps = (1./81.) * 1./(6.*np.pi)**0.5 * (1./a0)**(3/2) * (r/a0)**2 * np.exp(-r/(3*a0)) * (3 * np.cos(th)**2 - 1)
    
    return ps
    
    #return ((1./81.) * (1./np.pi)**0.5 * (1./a0)**(3/2) * (r/a0)**2 * (r/a0) * np.exp(-r/(3*a0)) * np.sin(th) * np.cos(th) * np.exp(2 * 1j * phi))**2 


data = np.fromfunction(psi, (100,100,200))
positive = np.log(np.clip(data, 0, data.max())**2)
negative = np.log(np.clip(-data, 0, -data.min())**2)

d2 = np.empty(data.shape + (4,), dtype=np.ubyte)
d2[..., 0] = positive * (255./positive.max())
d2[..., 1] = negative * (255./negative.max())
d2[..., 2] = d2[...,1]
d2[..., 3] = d2[..., 0]*0.3 + d2[..., 1]*0.3
d2[..., 3] = (d2[..., 3].astype(float) / 255.) **2 * 255

d2[:, 0, 0] = [255,0,0,100]
d2[0, :, 0] = [0,255,0,100]
d2[0, 0, :] = [0,0,255,100]

v = gl.GLVolumeItem(d2)
v.translate(-50,-50,-100)
w.addItem(v)

ax = gl.GLAxisItem()
w.addItem(ax)

if __name__ == '__main__':
    pg.mkQApp().exec_()