From edgar at openmail.cc  Sun Nov  4 03:17:43 2018
From: edgar at openmail.cc (edgar at openmail.cc)
Date: Sun, 04 Nov 2018 08:17:43 +0000
Subject: [Matplotlib-users] latex with graphical backend and svg savefig
Message-ID: <37b98603fee545d679330bc0d06032a9@openmail.cc>

Hello,

1. I want to report a possible issue (I don't want an account on 
GitHub... Micro$hit):

texmanager.py has

@ line 251:

         if rcParams['text.latex.unicode']:
             unicode_preamble = r"""
\usepackage[utf8]{inputenc}"""
         else:
             unicode_preamble = ''

@ line 299:

             if rcParams['text.latex.unicode']:
                 fh.write(s.encode('utf8'))

Due to font conflicts in my system [1], I need
   \usepackage{lmodern} \usepackage[QX]{fontenc}
(I tried with DejaVu Sans, without success). Adding it to the  rcParams  
in the  text.latex.preamble  does not help, because inputenc clashes 
with that. In another computer, if I disable  text.latex.unicode , 
Matplotlib tries to use ASCII, which creates an error.

I suggest that the first conditional is removed (since  
text.latex.unicode  is depreceated anyway), but I don't know how the 
unicode characters are going to be handled once that depreciation 
happens (second conditional). Again, I didn't get that issue (ASCII) 
with Parabola.


2. I want a SVG and to be able to show the figure on screen (possibly 
save it from the new window). How can I achieve that?

This [2] didn't work.

     ! Font TS1/cmr/m/it/16=tcti1728 at 17.28pt not loadable: Metric 
(TFM) file not
     found.
     <to be read again>
                    relax
     l.14 ...0000}{\rmfamily \textit{Velocity (?/sec)}
                                                   }

My failed attempt is below [3]

I tried to make this clear, but let me know if something needs 
clarification. Thanks!


My system:
Parabola GNU/Linux
pdfTeX, Version 3.14159265-2.6-1.40.18 (TeX Live 2017/Debian)
matplotlib._version.get_versions()
{'dirty': False, 'error': None, 'full-revisionid': 
'682e5195fae83393a75c71e84d1434cc9ff255fb', 'version': '3.0.1'}
(installed with pip)


[1] https://wiki.parabola.nu/TeXLive
[2] 
https://matplotlib.org/gallery/text_labels_and_annotations/tex_demo.html#sphx-glr-gallery-text-labels-and-annotations-tex-demo-py
[3]

import matplotlib as mpl
from matplotlib import pyplot as pl
# https://tex.stackexchange.com/a/391078
# https://3diagramsperpage.wordpress.com/category/matplotlib/
family = "DejaVu Sans"
serif, sans_serif, mono = [family] * 3
size = 14
labelsize = 12
legfontsize = 10
ticksize = 10
pgf_with_latex = {  # setup matplotlib to use latex for output
     "text.usetex": True,   # use LaTeX to write all text
     # "text.latex.unicode": True,        # 
https://github.com/MaxNoe/python-plotting/blob/master/source/siunitx_ticks.py
     "font.family": family,
     "font.serif": serif,  # blank entries should cause plots
     "font.sans-serif": sans_serif,  # to inherit fonts from the document
     "font.monospace": mono,
     # LaTeX default is 10pt font.
     "axes.labelsize": labelsize,
     "font.size": size,
     "legend.fontsize": legfontsize,  # Make the legend/label fonts
     "xtick.labelsize": ticksize,     # a little smaller
     "ytick.labelsize": ticksize,
     "text.latex.preamble": [
         # plots will be generated using this preamble
         # r"\usepackage[utf8x]{inputenc}",  # use utf8 fonts
         r"\usepackage{lmodern} \usepackage[QX]{fontenc}",
         r"\usepackage[detect-all]{siunitx}",
     ]
     }

mpl.rcParams.update(pgf_with_latex)

pl.plot([1e-6, 2e-6], label=r"?")
pl.legend()
pl.show()

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From jni.soma at gmail.com  Wed Nov  7 16:37:51 2018
From: jni.soma at gmail.com (Juan Nunez-Iglesias)
Date: Wed, 07 Nov 2018 16:37:51 -0500
Subject: [Matplotlib-users] Using Matplotlib nbagg for _repr_html_ for
 notebooks
Message-ID: <912ba95f-79ec-478b-ae5d-8951f1d4b141@sloti1d3t01>

Hi, 
 
I'm working on a class to which I would like to add a _repr_html_ [1] method for display in Jupyter notebooks. Is there a way to generate a matplotlib notebook backend view "offline" (not using pyplot, since that will behave differently depending on the currently active backend), and then return the corresponding html? 
 
Thanks, 
 
Juan. 
 
.. [1]: https://ipython.readthedocs.io/en/stable/config/integrating.html#rich-display 
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From jni.soma at gmail.com  Wed Nov  7 19:24:45 2018
From: jni.soma at gmail.com (Juan Nunez-Iglesias)
Date: Wed, 07 Nov 2018 19:24:45 -0500
Subject: [Matplotlib-users] 
 =?utf-8?q?Using_Matplotlib_nbagg_for_=5Frepr?=
 =?utf-8?q?=5Fhtml=5F_for_notebooks?=
In-Reply-To: <CAA48SF84HAGe0Lwuzu6wiLEXAVRjqRZTvhUAxzsGtrjnHAPpKw@mail.gmail.com>
References: <912ba95f-79ec-478b-ae5d-8951f1d4b141@sloti1d3t01>
 <CAA48SF84HAGe0Lwuzu6wiLEXAVRjqRZTvhUAxzsGtrjnHAPpKw@mail.gmail.com>
Message-ID: <b9713b8b-7adc-47f5-a6ef-a4d9a7a02e88@sloti1d3t01>

Thanks Tom! 
 
My question is, would it be possible for the html to contain the interactive MPL figure, as returned by the notebook backend? There's also _repr_javascript_ it turns out. 
 
But yes, this is already great, I can use this for _repr_png_.
 
I'm targeting 3.0+ so "new enough matplotlib" shouldn't be an issue. =) 
 
Juan.
 
On Thu, Nov 8, 2018, at 11:16 AM, Thomas Caswell wrote: 
> Something like: 
>  
> ``` 
> from matplotlib.figure import Figure 
> from matplotlib.backends.backend_agg import FigureCanvas 
>  
> fig = Figure() 
> canvas = FigureCanvas(fig) # this step will be optional in mpl 3.1 (and current master) 
>  
> ax = fig.subplots() # assuming new enough matplotlib 
> ``` 
>  
> or one of the other backends. If you are doing this for a htmlrepr you likely want to also do 
>  
> ``` 
> output = BytesIO() 
> fig.savefig(output, format='png') 
> ``` 
>  
> to get the image as a buffer you can inject into the repr (or SVG?) 
>  
> Hope that helps! 
>  
> Tom 
>  
> On Wed, Nov 7, 2018 at 4:38 PM Juan Nunez-Iglesias <jni.soma at gmail.com> wrote: 
>> __ 
>> Hi, 
>>  
>> I'm working on a class to which I would like to add a _repr_html_ [1] method for display in Jupyter notebooks. Is there a way to generate a matplotlib notebook backend view "offline" (not using pyplot, since that will behave differently depending on the currently active backend), and then return the corresponding html? 
>>  
>> Thanks, 
>>  
>> Juan. 
>>  
>> .. [1]: https://ipython.readthedocs.io/en/stable/config/integrating.html#rich-display 
>> _______________________________________________ 
>>  Matplotlib-users mailing list 
>>  Matplotlib-users at python.org 
>>  https://mail.python.org/mailman/listinfo/matplotlib-users 
>  
>  
> --  
> Thomas Caswell 
> tcaswell at gmail.com 
 
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From tcaswell at gmail.com  Fri Nov  9 16:23:22 2018
From: tcaswell at gmail.com (Thomas Caswell)
Date: Fri, 9 Nov 2018 16:23:22 -0500
Subject: [Matplotlib-users] Using Matplotlib nbagg for _repr_html_ for
 notebooks
In-Reply-To: <b9713b8b-7adc-47f5-a6ef-a4d9a7a02e88@sloti1d3t01>
References: <912ba95f-79ec-478b-ae5d-8951f1d4b141@sloti1d3t01>
 <CAA48SF84HAGe0Lwuzu6wiLEXAVRjqRZTvhUAxzsGtrjnHAPpKw@mail.gmail.com>
 <b9713b8b-7adc-47f5-a6ef-a4d9a7a02e88@sloti1d3t01>
Message-ID: <CAA48SF8C38ujgk2odzCvCqeycOHJDTmpm8gMu_rAZh8VbJZw6A@mail.gmail.com>

Ah, I misunderstood!

In that case I suggest looking at ipympl / jupyter-matplotlib (which is a
ipywidget based backend).  I suspect you can use the same process to get a
rendered canvas, and there is likely a way to extract the widget objects
from it.

Tom

On Wed, Nov 7, 2018 at 7:24 PM Juan Nunez-Iglesias <jni.soma at gmail.com>
wrote:

> Thanks Tom!
>
> My question is, would it be possible for the html to contain the
> interactive MPL figure, as returned by the notebook backend? There's also
> _repr_javascript_ it turns out.
>
> But yes, this is already great, I can use this for _repr_png_.
>
> I'm targeting 3.0+ so "new enough matplotlib" shouldn't be an issue. =)
>
> Juan.
>
> On Thu, Nov 8, 2018, at 11:16 AM, Thomas Caswell wrote:
>
> Something like:
>
> ```
> from matplotlib.figure import Figure
> from matplotlib.backends.backend_agg import FigureCanvas
>
> fig = Figure()
> canvas = FigureCanvas(fig)  # this step will be optional in mpl 3.1 (and
> current master)
>
> ax = fig.subplots()  # assuming new enough matplotlib
> ```
>
> or one of the other backends.  If you are doing this for a htmlrepr you
> likely want to also do
>
> ```
> output = BytesIO()
> fig.savefig(output, format='png')
> ```
>
> to get the image as a buffer you can inject into the repr (or SVG?)
>
> Hope that helps!
>
> Tom
>
> On Wed, Nov 7, 2018 at 4:38 PM Juan Nunez-Iglesias <jni.soma at gmail.com>
> wrote:
>
>
> Hi,
>
> I'm working on a class to which I would like to add a _repr_html_ [1]
> method for display in Jupyter notebooks. Is there a way to generate a
> matplotlib notebook backend view "offline" (not using pyplot, since that
> will behave differently depending on the currently active backend), and
> then return the corresponding html?
>
> Thanks,
>
> Juan.
>
> .. [1]:
> https://ipython.readthedocs.io/en/stable/config/integrating.html#rich-display
> _______________________________________________
> Matplotlib-users mailing list
> Matplotlib-users at python.org
> https://mail.python.org/mailman/listinfo/matplotlib-users
>
>
>
> --
> Thomas Caswell
> tcaswell at gmail.com
>
>
>

-- 
Thomas Caswell
tcaswell at gmail.com
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From tcaswell at gmail.com  Sun Nov 11 01:02:48 2018
From: tcaswell at gmail.com (Thomas Caswell)
Date: Sun, 11 Nov 2018 17:02:48 +1100
Subject: [Matplotlib-users] [REL] Matplotlib v3.0.1 and v3.0.2
Message-ID: <CAA48SF_B+RKquFnNRiuvcvpKbb-yofosrnCWqOXeykUuGqsf5Q@mail.gmail.com>

Folks,

Happy to announce the second bug-fix release for the Matplotlib 3.0
series.

REL: v3.0.2

This is the second bug-fix release for the v3.0 series.

 - Un-breaks basemap which was broken by partially restoring
   private APIs for cartopy.
 - Fixes bug in warning code when used in an embedded context.
 - Fixes crash when using Tk and closing the first open window before
showing it
 - Many documentation improvements.
 - Restore a corner case on ColorBar tick usage.
 - Change the default behavior of `matplotlib.use` to silently allow
   more 'safe' switching after auto-discovery, but before starting an event
loop.
 - Improvements to bounding box calculations.
 - Provide the correct length for RcParams instances.

Wheels and packages on the conda-forge are available and the docs should be
available (modulo caching issues).

Thank you to everyone who worked on this!

Tom


-- 
Thomas Caswell
tcaswell at gmail.com
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From navajyoth at iiserb.ac.in  Tue Nov 27 02:42:18 2018
From: navajyoth at iiserb.ac.in (navajyoth814)
Date: Tue, 27 Nov 2018 00:42:18 -0700 (MST)
Subject: [Matplotlib-users] How to overcome the hatchings getting cut in
 contour plots?
Message-ID: <1543304538817-0.post@n5.nabble.com>

<http://matplotlib.1069221.n5.nabble.com/file/t5196/Screenshot_20181127-131006.png> 


I have been using hatchings (dots) on top of contour plots. Tjese dots are
getting cut at some places. How do I get rid of this? 

Please have a look at the image to see the error.



--
Sent from: http://matplotlib.1069221.n5.nabble.com/matplotlib-users-f3.html

From ben.v.root at gmail.com  Tue Nov 27 10:00:36 2018
From: ben.v.root at gmail.com (Benjamin Root)
Date: Tue, 27 Nov 2018 10:00:36 -0500
Subject: [Matplotlib-users] How to overcome the hatchings getting cut in
 contour plots?
In-Reply-To: <1543304538817-0.post@n5.nabble.com>
References: <1543304538817-0.post@n5.nabble.com>
Message-ID: <CANNq6F=Ejyo9MWnotF7op-ZRaQVjBnBsaHm+DRUjF8mD1Fwqhg@mail.gmail.com>

The hatchings are clipped to the polygon or patch object they reside
within. Therefore, you can't prevent cutting off some of the hatching
because they need to be bounded somewhere. Now, you can change the density
of a hatch if that helps, by repeating the character you used for your
hatch.

Ben Root

On Tue, Nov 27, 2018 at 2:42 AM navajyoth814 via Matplotlib-users <
matplotlib-users at python.org> wrote:

> <
> http://matplotlib.1069221.n5.nabble.com/file/t5196/Screenshot_20181127-131006.png>
>
>
>
> I have been using hatchings (dots) on top of contour plots. Tjese dots are
> getting cut at some places. How do I get rid of this?
>
> Please have a look at the image to see the error.
>
>
>
> --
> Sent from:
> http://matplotlib.1069221.n5.nabble.com/matplotlib-users-f3.html
> _______________________________________________
> Matplotlib-users mailing list
> Matplotlib-users at python.org
> https://mail.python.org/mailman/listinfo/matplotlib-users
>
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From zxs.201 at gmail.com  Tue Nov 27 16:05:01 2018
From: zxs.201 at gmail.com (Xiaosong Zhu)
Date: Tue, 27 Nov 2018 22:05:01 +0100
Subject: [Matplotlib-users] (no subject)
Message-ID: <5bfdb17b.1c69fb81.87856.37f6@mx.google.com>

Hi Everyone!

May I ask a question. Is it possible to plot the 3D iso-surface figures? Like the figures plotted by isosurface in MATLAB?

https://www.mathworks.com/help/matlab/ref/isosurface.html

Or like the 1st figure in 

https://en.wikipedia.org/wiki/Atomic_orbital.

I need this because I would like to plot the configure of target molecular orbitals using the data calculated from first-principle calculation. I have looked through the examples of the website. There are only examples similar to this but not the same?

Thanks very much!

Sincerely,
Xiaosong
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From ben.v.root at gmail.com  Tue Nov 27 16:19:47 2018
From: ben.v.root at gmail.com (Benjamin Root)
Date: Tue, 27 Nov 2018 16:19:47 -0500
Subject: [Matplotlib-users] (no subject)
In-Reply-To: <5bfdb17b.1c69fb81.87856.37f6@mx.google.com>
References: <5bfdb17b.1c69fb81.87856.37f6@mx.google.com>
Message-ID: <CANNq6FmQJ4nUSVHFX2m4msUzJ4O7BUq276DwubvjOVE-Qefi0g@mail.gmail.com>

plot_surface() in mplot3d can ultimately do what you want, but you need to
provide it the isosurface. I think scikit-image can provide that
information with its marching cubes function.

Does that help?

Ben Root


On Tue, Nov 27, 2018 at 4:05 PM Xiaosong Zhu <zxs.201 at gmail.com> wrote:

> Hi Everyone!
>
>
>
> May I ask a question. Is it possible to plot the 3D iso-surface figures?
> Like the figures plotted by isosurface in MATLAB?
>
>
>
> https://www.mathworks.com/help/matlab/ref/isosurface.html
>
>
>
> Or like the 1st figure in
>
>
>
> https://en.wikipedia.org/wiki/Atomic_orbital.
>
>
>
> I need this because I would like to plot the configure of target molecular
> orbitals using the data calculated from first-principle calculation. I have
> looked through the examples of the website. There are only examples similar
> to this but not the same?
>
>
>
> Thanks very much!
>
>
>
> Sincerely,
>
> Xiaosong
> _______________________________________________
> Matplotlib-users mailing list
> Matplotlib-users at python.org
> https://mail.python.org/mailman/listinfo/matplotlib-users
>
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From zxs.201 at gmail.com  Tue Nov 27 16:34:57 2018
From: zxs.201 at gmail.com (Xiaosong Zhu)
Date: Tue, 27 Nov 2018 22:34:57 +0100
Subject: [Matplotlib-users] (no subject)
In-Reply-To: <CANNq6FmQJ4nUSVHFX2m4msUzJ4O7BUq276DwubvjOVE-Qefi0g@mail.gmail.com>
References: <5bfdb17b.1c69fb81.87856.37f6@mx.google.com>
 <CANNq6FmQJ4nUSVHFX2m4msUzJ4O7BUq276DwubvjOVE-Qefi0g@mail.gmail.com>
Message-ID: <5bfdb880.1c69fb81.60b43.36c2@mx.google.com>

Dear Ben,

Thank you very much! I guess so and I will check that! I previously saw some examples but thought colour could only be the same at the same height. But this may not be true. The cubes may be also helpful!

Thank you very much for your help!

Sincerely,
Xiaosong

???: Benjamin Root
????: 2018?11?27? 22:20
???: zxs.201 at gmail.com
??: Matplotlib-users
??: Re: [Matplotlib-users] (no subject)

plot_surface() in mplot3d can ultimately do what you want, but you need to provide it the isosurface. I think scikit-image can provide that information with its marching cubes function.

Does that help?

Ben Root


On Tue, Nov 27, 2018 at 4:05 PM Xiaosong Zhu <zxs.201 at gmail.com> wrote:
Hi Everyone!
?
May I ask a question. Is it possible to plot the 3D iso-surface figures? Like the figures plotted by isosurface in MATLAB?
?
https://www.mathworks.com/help/matlab/ref/isosurface.html
?
Or like the 1st figure in 
?
https://en.wikipedia.org/wiki/Atomic_orbital.
?
I need this because I would like to plot the configure of target molecular orbitals using the data calculated from first-principle calculation. I have looked through the examples of the website. There are only examples similar to this but not the same?
?
Thanks very much!
?
Sincerely,
Xiaosong
_______________________________________________
Matplotlib-users mailing list
Matplotlib-users at python.org
https://mail.python.org/mailman/listinfo/matplotlib-users

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From ben.v.root at gmail.com  Tue Nov 27 16:50:06 2018
From: ben.v.root at gmail.com (Benjamin Root)
Date: Tue, 27 Nov 2018 16:50:06 -0500
Subject: [Matplotlib-users] (no subject)
In-Reply-To: <5bfdb880.1c69fb81.60b43.36c2@mx.google.com>
References: <5bfdb17b.1c69fb81.87856.37f6@mx.google.com>
 <CANNq6FmQJ4nUSVHFX2m4msUzJ4O7BUq276DwubvjOVE-Qefi0g@mail.gmail.com>
 <5bfdb880.1c69fb81.60b43.36c2@mx.google.com>
Message-ID: <CANNq6FkQ2fr1+bCkKPxxjPOn7-Wx06fEfPjUXyjx7+RxXzz2-g@mail.gmail.com>

The default settings for plot_surface() yields an surface with the same
color. There are multiple ways to color the surface, either by supplying
color information yourself via "facecolors", or turning on the "shade",
and/or providing a "lightsource" object for custom shading. Unfortunately,
the docs are pretty sparse in this area, but hopefully this will help.

https://matplotlib.org/api/_as_gen/mpl_toolkits.mplot3d.axes3d.Axes3D.html#mpl_toolkits.mplot3d.axes3d.Axes3D.plot_surface
There are some examples of using some of these keyword arguments here:
https://matplotlib.org/examples/mplot3d/index.html

Ben Root


On Tue, Nov 27, 2018 at 4:34 PM Xiaosong Zhu <zxs.201 at gmail.com> wrote:

> Dear Ben,
>
>
>
> Thank you very much! I guess so and I will check that! I previously saw
> some examples but thought colour could only be the same at the same height.
> But this may not be true. The cubes may be also helpful!
>
>
>
> Thank you very much for your help!
>
>
>
> Sincerely,
>
> Xiaosong
>
>
>
> *???: *Benjamin Root <ben.v.root at gmail.com>
> *????: *2018?11?27? 22:20
> *???: *zxs.201 at gmail.com
> *??: *Matplotlib-users <matplotlib-users at python.org>
> *??: *Re: [Matplotlib-users] (no subject)
>
>
>
> plot_surface() in mplot3d can ultimately do what you want, but you need to
> provide it the isosurface. I think scikit-image can provide that
> information with its marching cubes function.
>
>
>
> Does that help?
>
>
>
> Ben Root
>
>
>
>
>
> On Tue, Nov 27, 2018 at 4:05 PM Xiaosong Zhu <zxs.201 at gmail.com> wrote:
>
> Hi Everyone!
>
>
>
> May I ask a question. Is it possible to plot the 3D iso-surface figures?
> Like the figures plotted by isosurface in MATLAB?
>
>
>
> https://www.mathworks.com/help/matlab/ref/isosurface.html
>
>
>
> Or like the 1st figure in
>
>
>
> https://en.wikipedia.org/wiki/Atomic_orbital.
>
>
>
> I need this because I would like to plot the configure of target molecular
> orbitals using the data calculated from first-principle calculation. I have
> looked through the examples of the website. There are only examples similar
> to this but not the same?
>
>
>
> Thanks very much!
>
>
>
> Sincerely,
>
> Xiaosong
>
> _______________________________________________
> Matplotlib-users mailing list
> Matplotlib-users at python.org
> https://mail.python.org/mailman/listinfo/matplotlib-users
>
>
>
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From zxs.201 at gmail.com  Tue Nov 27 17:21:28 2018
From: zxs.201 at gmail.com (Xiaosong Zhu)
Date: Tue, 27 Nov 2018 23:21:28 +0100
Subject: [Matplotlib-users] (no subject)
In-Reply-To: <CANNq6FkQ2fr1+bCkKPxxjPOn7-Wx06fEfPjUXyjx7+RxXzz2-g@mail.gmail.com>
References: <5bfdb17b.1c69fb81.87856.37f6@mx.google.com>
 <CANNq6FmQJ4nUSVHFX2m4msUzJ4O7BUq276DwubvjOVE-Qefi0g@mail.gmail.com>
 <5bfdb880.1c69fb81.60b43.36c2@mx.google.com>
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Message-ID: <5bfdc367.1c69fb81.ac2e.39c8@mx.google.com>

Dear Ben,

Thank you very much! Now that I know it is possible, I will carefully read the manual and solve the problem!

Sincerely,
Xiaosong


???: Benjamin Root
????: 2018?11?27? 22:50
???: zxs.201 at gmail.com
??: Matplotlib-users
??: Re: [Matplotlib-users] (no subject)

The default settings for plot_surface() yields an surface with the same color. There are multiple ways to color the surface, either by supplying color information yourself via "facecolors", or turning on the "shade", and/or providing a "lightsource" object for custom shading. Unfortunately, the docs are pretty sparse in this area, but hopefully this will help.

https://matplotlib.org/api/_as_gen/mpl_toolkits.mplot3d.axes3d.Axes3D.html#mpl_toolkits.mplot3d.axes3d.Axes3D.plot_surface
There are some examples of using some of these keyword arguments here: https://matplotlib.org/examples/mplot3d/index.html

Ben Root


On Tue, Nov 27, 2018 at 4:34 PM Xiaosong Zhu <zxs.201 at gmail.com> wrote:
Dear Ben,
?
Thank you very much! I guess so and I will check that! I previously saw some examples but thought colour could only be the same at the same height. But this may not be true. The cubes may be also helpful!
?
Thank you very much for your help!
?
Sincerely,
Xiaosong
?
???: Benjamin Root
????: 2018?11?27? 22:20
???: zxs.201 at gmail.com
??: Matplotlib-users
??: Re: [Matplotlib-users] (no subject)
?
plot_surface() in mplot3d can ultimately do what you want, but you need to provide it the isosurface. I think scikit-image can provide that information with its marching cubes function.
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Does that help?
?
Ben Root
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?
On Tue, Nov 27, 2018 at 4:05 PM Xiaosong Zhu <zxs.201 at gmail.com> wrote:
Hi Everyone!
?
May I ask a question. Is it possible to plot the 3D iso-surface figures? Like the figures plotted by isosurface in MATLAB?
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https://www.mathworks.com/help/matlab/ref/isosurface.html
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Or like the 1st figure in 
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https://en.wikipedia.org/wiki/Atomic_orbital.
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I need this because I would like to plot the configure of target molecular orbitals using the data calculated from first-principle calculation. I have looked through the examples of the website. There are only examples similar to this but not the same?
?
Thanks very much!
?
Sincerely,
Xiaosong
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