Mailman 3 Problem running volume rendering example - yt-users

Aug. 3, 2019

      Hi yt-users,

I’ve wanted to have a look into the volume rendering examples.
However, 
when I run the following code from the examples (https://yt-project.org/doc/quickstart/volume_rendering.html)

import yt

ds = yt.load("IsolatedGalaxy/galaxy0030/galaxy0030")
sc = yt.create_scene(ds)

sc.camera.set_width(ds.quan(20, 'kpc'))

source = sc.sources['source_00']

tf = yt.ColorTransferFunction((-28, -24))
tf.add_layers(4, w=0.01)

source.set_transfer_function(tf)

sc.show()

I get  the following (error) output: (full output, see below)

: Support for the <ufunc 'clip'> ufunc with 3 inputs has not beenadded to YTArray.

Am I missing something? 

installation is 
yt 3.5.1
numpy 1.17.
matplotlib 3.1.1

Thanks for any help

Christoph

---------------------------------------------------------------------------
RuntimeError
                              Traceback (most recent call last)

~/src/python_virtual_env/lib/python3.7/site-packages/IPython/core/formatters.py in __call__(self, obj)
    343             method = get_real_method(obj, self.print_method)
    344             if method is not None:
--> 345                 return method()
    346             return None
    347         else:

~/src/python_virtual_env/lib/python3.7/site-packages/yt/visualization/volume_rendering/scene.py in _repr_png_(self)
    926
         png = self._last_render.write_png(filename=None,

    927                                           sigma_clip=self._sigma_clip,
--> 928
                                           background='black')

    929         self._sigma_clip = None
    930         return
 png

~/src/python_virtual_env/lib/python3.7/site-packages/yt/data_objects/image_array.py in write_png(self, filename, sigma_clip, background, rescale, clip_ratio)
    287
         """

    288         if rescale:
--> 289             scaled = self.rescale(inline=False)
    290         else:
    291             scaled =
 self

~/src/python_virtual_env/lib/python3.7/site-packages/yt/data_objects/image_array.py in rescale(self, cmax, amax, inline)
    240                 np.multiply(self[:, :, 3], 1.0/amax, out[:, :, 3])
    241

--> 242         np.clip(out, 0.0, 1.0, out)
    243         return
 out

    244

<__array_function__ internals> in clip(*args, **kwargs)

~/src/python_virtual_env/lib/python3.7/site-packages/numpy/core/fromnumeric.py in clip(a, a_min, a_max, out, **kwargs)
   2035

   2036
     """

-> 2037     return _wrapfunc(a, 'clip', a_min, a_max, out=out, **kwargs)
   2038

   2039

~/src/python_virtual_env/lib/python3.7/site-packages/numpy/core/fromnumeric.py in _wrapfunc(obj, method, *args, **kwds)
     59

     60     try:
---> 61         return bound(*args, **kwds)
     62     except TypeError:
     63         # A TypeError occurs if the object does have such a method in its

~/src/python_virtual_env/lib/python3.7/site-packages/numpy/core/_methods.py in _clip(a, min, max, out, casting, **kwargs)
    130     else:
    131
         return _clip_dep_invoke_with_casting(

--> 132
             um.clip, a, min, max, out=out, casting=casting, **kwargs)

    133

    134 def _mean(a, axis=None, dtype=None, out=None, keepdims=False):

~/src/python_virtual_env/lib/python3.7/site-packages/numpy/core/_methods.py in _clip_dep_invoke_with_casting(ufunc, out, casting, *args, **kwargs)
     83     # try to deal with broken casting rules
     84     try:
---> 85         return ufunc(*args, out=out, **kwargs)
     86     except _exceptions._UFuncOutputCastingError as e:
     87         # Numpy 1.17.0, 2019-02-24

~/src/python_virtual_env/lib/python3.7/site-packages/yt/units/yt_array.py in __array_ufunc__(self, ufunc, method, *inputs, **kwargs)
   1399
                 raise RuntimeError(

   1400                     "Support for the %s ufunc with %i inputs has not been"
-> 1401
                     "added to YTArray." % (str(ufunc), len(inputs)))

   1402             if unit is None:
   1403                 out_arr = np.array(out_arr, copy=False)

RuntimeError
: Support for the <ufunc 'clip'> ufunc with 3 inputs has not beenadded to YTArray.

<Scene Object>:
Sources: 
    source_00: <Volume Source>:YTRegion (galaxy0030): , center=[1.543e+24 1.543e+24 1.543e+24] cm, left_edge=[0. 0. 0.] cm, right_edge=[3.086e+24 3.086e+24 3.086e+24] cm transfer_function:<Color Transfer Function Object>:
x_bounds:[-28, -24] nbins:256 features:
	('gaussian', 'location(x):-28', 'width(x):0.01', 'height(y):(0.43, 0.024, 0.047, 0.001)')
	('gaussian', 'location(x):-27', 'width(x):0.01', 'height(y):(0.34, 0.34, 0.68, 0.01)')
	('gaussian', 'location(x):-25', 'width(x):0.01', 'height(y):(0.66, 0.66, 0.32, 0.1)')
	('gaussian', 'location(x):-24', 'width(x):0.01', 'height(y):(0.98, 0.98, 0.91,   1)')

Camera: 
    <Camera Object>:
	position:[1. 1. 1.] code_length
	focus:[0.5 0.5 0.5] code_length
	north_vector:[ 0.81649658 -0.40824829 -0.40824829] dimensionless
	width:[0.01999791 0.01999791 0.01999791] unitary
	light:None
	resolution:(512, 512)
Lens: <Lens Object>:
	lens_type:plane-parallel
	viewpoint:[-11545.30474893 -11545.30474893 -11545.30474893] code_length

Problem running volume rendering example

Christoph Schaefer

Matthew Turk

John ZuHone

John ZuHone

Christoph Schaefer

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