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 numpy as np
import pyqtgraph as pg
from pyqtgraph.Qt import QtCore, QtGui
import pyqtgraph.opengl as gl
from pyqtgraph import functions as fn

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)

## 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, np.hypot(x, y))
    phi = np.arctan2(y, x)
    r = np.sqrt(x**2 + y**2 + z **2)
    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


data = np.fromfunction(psi, (100,100,200))
positive = np.log(fn.clip_array(data, np.finfo(data.dtype).eps, data.max())**2)
negative = np.log(fn.clip_array(-data, -np.finfo(data.dtype).eps, -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_()