Jupyter + Matplotlib > plot_surface()の時間がかかるので、progressを表示する > link: with 文と @contextlib.contextmanager が便利

GeForce GTX 1070 (8GB)
ASRock Z170M Pro4S [Intel Z170chipset]
Ubuntu 16.04 LTS desktop amd64
TensorFlow v1.2.1
cuDNN v5.1 for Linux
CUDA v8.0
Python 3.5.2
IPython 6.0.0 -- An enhanced Interactive Python.
gcc (Ubuntu 5.4.0-6ubuntu1~16.04.4) 5.4.0 20160609
GNU bash, version 4.3.48(1)-release (x86_64-pc-linux-gnu)
scipy v0.19.1
geopandas v0.3.0
MATLAB R2017b (Home Edition)
ADDA v.1.3b6

import matplotlib.pyplot as plt
from matplotlib import cm, colors
from mpl_toolkits.mplot3d import Axes3D
from pylab import rcParams
import numpy as np
import time
import contextlib

"""
v0.6 Jan. 08, 2018
  - print progress of the processing using the contextmanager
     - add using_oneline_print()
v0.5 Jan. 07, 2018
  - rename to [showParticleShape_18017.ipynb]
    + was [showChebyshev_170910.ipynb]
v0.4 Sep. 10, 2017
  - read ADDA file [IntField-Y]
v0.3 Sep. 10, 2017
  - set colors in X direction
  - increase number of spheres to 3000
v0.2 Sep. 10, 2017
  - show 8 spheres
  - lower the resolution of the sphere (from 100j to 6j)
v0.1 Sep. 10, 2017
  - show 2 spheres
"""

# coding rule: PEP8

rcParams['figure.figsize'] = 15, 10


# reference
# https://stackoverflow.com/questions/31768031/plotting-points-on-the-surface-of-a-sphere-in-pythons-matplotlib


# Reference:
# countdown.py at
# https://qiita.com/QUANON/items/c5868b6c65f8062f5876
# by @QUANON
@contextlib.contextmanager
def oneline_print():
    import sys
    original_write = sys.stdout.write  # keep the original function

    def overwrite(text):
        # delete from the cursor position to the end of line
        original_write('\033[K')
        original_write('\r')  # move to the beginning of line
        # remove new line at the end from the text and print()
        original_write(text.rstrip('\n'))

    sys.stdout.write = overwrite  # replace the function

    try:
        yield
    finally:
        sys.stdout.write = original_write  # set the original function
        print('*** [sys.stdout.write] is now the original')


def plot_spheres(xps, yps, zps):
    for idx, elem in enumerate(zip(xps, yps, zps)):
        axp, ayp, azp = elem
        if idx % 10 == 0:
            # print progress
            msg = "%.2f " % (idx / len(xps) * 100) + "%"
            print(msg)  # progress
        dx = x + axp
        dy = y + ayp
        dz = z + azp
        ax.plot_surface(
            dx, dy, dz,  rstride=1, cstride=1, color='c',
            alpha=1.0, linewidth=0,
            # 50: arbitrary chosen to set colors
            facecolors=plt.cm.Set2((dx - 0) / (50 - 0)))

start_time = time.time()

# Create a sphere
r = 1
pi = np.pi
cos = np.cos
sin = np.sin
phi, theta = np.mgrid[0.0:pi:6j, 0.0:2.0*pi:6j]
x = r*sin(phi)*cos(theta)
y = r*sin(phi)*sin(theta)
z = r*cos(phi)


# read from ADDA file
INPFILE = 'IntField-Y'
SHIFT_POS = 10.0
dat = np.genfromtxt(INPFILE, delimiter=' ', skip_header=1)
xpar, ypar, zpar = [], [], []
for elem in dat:
    axp, ayp, azp = elem[:3]
    # 3.0: arbitrary chosen to adjust sphere positions
    xpar += [(axp + SHIFT_POS) * 3.0]
    ypar += [(ayp + SHIFT_POS) * 3.0]
    zpar += [(azp + SHIFT_POS) * 3.0]

# Set colours and render
fig = plt.figure()
ax = fig.add_subplot(111, projection='3d')

SKIP_NUM = 2
xp = xpar[::SKIP_NUM]
yp = ypar[::SKIP_NUM]
zp = zpar[::SKIP_NUM]

with oneline_print():
    plot_spheres(xp, yp, zp)

ax.set_xlim([0, 50])
ax.set_ylim([0, 50])
ax.set_zlim([0, 50])
ax.set_aspect("equal")
plt.tight_layout()
plt.show()

duration = time.time() - start_time
print("%.3f sec" % duration)