# [Matplotlib-users] Creating a smooth surface in 3D

Bala subramanian bala.biophysics at gmail.com
Sun Jun 3 06:45:32 EDT 2018

```I managed to interpolate the face colors based on vertex property following
the example given below.

https://stackoverflow.com/questions/24218543/colouring-the-surface-of-a-sphere-with-a-set-of-scalar-values-in-matplotlib

I am just updating here so as to direct anyone looking trying similar
stuff. Thanks.

On Fri, Jun 1, 2018 at 10:52 AM, Bala subramanian <bala.biophysics at gmail.com
> wrote:

> Thanks for the inputs. After some efforts, I managed to create the surface
> by generating vertex and faces using an external program and mpl tools.
>
> ax1.plot_trisurf(x, y, z, triangles=faces,color='w', lw=10)
>
> ax1.scatter3D(x, y, z, c= cols,s=10)
>
> However, i am now trying to figure out the simple way to color the
> triangles using the vertex colors.
>
> For each vertex, I have assigned a color (ranges from blue to red) which
> in my case represents a calculated property. So basically I have a color
> array (cols in the above snippet) that I passed to the scatter function. I
> would like to know how I can color the triangle by interpolating to the
> colors of the vertex it belongs to. The available examples in net show the
> usage of colormaps. In my case, the triangles should adopt vertex colors.
>
> Any tricks to achieve this could be of much help. I have attached a sample
> figure, which i believe, could better elucidate the problem.
>
>
>
>
>
>
> On Mon, May 28, 2018 at 3:19 PM, Benjamin Root <ben.v.root at gmail.com>
> wrote:
>
>> mplot3d is good for real simple 3d scenes, but it falls apart when you
>> start composing things like this. You might want to consider using
>> something like glumpy or mayavi for better results. There are some
>> discussions in the past on the problems inherent in creating spheres in
>> mplot3d. There are some interesting solutions, but they get fairly complex
>> pretty quickly.
>>
>> Cheers!
>> Ben Root
>>
>> On Mon, May 28, 2018 at 8:16 AM, Bala subramanian <
>> bala.biophysics at gmail.com> wrote:
>>
>>> Dear mpl friends,
>>>
>>> My objective is to create a molecular surface using matplotlib. I used
>>> the snippet pasted below to create a series of spheres (attached png),
>>> drawn using the atom attributes (their positions and radius). From here, I
>>> would like to create a smooth surface which can depict the shape of the
>>> molecule surface (curves,cavities etc). Based on examples in net, I get a
>>> mixed feeling that either triangulation or making 3D grids are some
>>> directions to proceed. If anyone has some suggestions or better protocols
>>> for such task with some example data, it would be of great help to me.
>>>
>>> fig = plt.figure(figsize=(6,6),dpi=140)
>>>
>>>
>>> # Define spherical coordinates
>>>
>>> u, v = np.mgrid[0:2*np.pi:20j, 0:np.pi:10j]
>>>
>>> S = np.cos(u)*np.sin(v)
>>>
>>> C = np.sin(u)*np.sin(v)
>>>
>>> T = np.cos(v)
>>>
>>>
>>>          ax1.plot_wireframe(R*S+P[0],R*C+P[1],R*T+P[2],color='r',alph
>>> a=0.4)
>>>
>>>
>>> Bala
>>>
>>>
>>> --
>>> C. Balasubramanian
>>>
>>> _______________________________________________
>>> Matplotlib-users mailing list
>>> Matplotlib-users at python.org
>>> https://mail.python.org/mailman/listinfo/matplotlib-users
>>>
>>>
>>
>
>
> --
> C. Balasubramanian
>

--
C. Balasubramanian
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