8000 3D scatter edgecolors='none' causes error · Issue #18242 · matplotlib/matplotlib · GitHub
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kjohnsen opened this issue Aug 13, 2020 · 2 comments
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3D scatter edgecolors='none' causes error #18242

kjohnsen opened this issue Aug 13, 2020 · 2 comments
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status: duplicate

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@kjohnsen
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Bug report

Bug summary

Setting the edge color of markers on a 3D scatterplot apparently doesn't work.

Code for reproduction

import matplotlib.pyplot as plt
import numpy as np
from mpl_toolkits.mplot3d import Axes3D
fig = plt.figure()
ax = fig.add_subplot(111, projection='3d')
ax.scatter([0, 1], [0, 1], [0, 1], c='b', edgecolors='none')
plt.show()

Actual outcome

ValueError                                Traceback (most recent call last)
~\.conda\envs\brian2genn\lib\site-packages\IPython\core\formatters.py in __call__(self, obj)
    339                 pass
    340             else:
--> 341                 return printer(obj)
    342             # Finally look for special method names
    343             method = get_real_method(obj, self.print_method)

~\.conda\envs\brian2genn\lib\site-packages\IPython\core\pylabtools.py in (fig)
    252         jpg_formatter.for_type(Figure, lambda fig: print_figure(fig, 'jpg', **kwargs))
    253     if 'svg' in formats:
--> 254         svg_formatter.for_type(Figure, lambda fig: print_figure(fig, 'svg', **kwargs))
    255     if 'pdf' in formats:
    256         pdf_formatter.for_type(Figure, lambda fig: print_figure(fig, 'pdf', **kwargs))

~\.conda\envs\brian2genn\lib\site-packages\IPython\core\pylabtools.py in print_figure(fig, fmt, bbox_inches, **kwargs)
    130         FigureCanvasBase(fig)
    131 
--> 132     fig.canvas.print_figure(bytes_io, **kw)
    133     data = bytes_io.getvalue()
    134     if fmt == 'svg':

~\.conda\envs\brian2genn\lib\site-packages\matplotlib\backend_bases.py in print_figure(self, filename, dpi, facecolor, edgecolor, orientation, format, bbox_inches, **kwargs)
   2063                         orientation=orientation,
   2064                         dryrun=True,
-> 2065                         **kwargs)
   2066                     renderer = self.figure._cachedRenderer
   2067                     bbox_artists = kwargs.pop("bbox_extra_artists", None)

~\.conda\envs\brian2genn\lib\site-packages\matplotlib\backends\backend_svg.py in print_svg(self, filename, *args, **kwargs)
   1200                 detach = True
   1201 
-> 1202             result = self._print_svg(filename, fh, **kwargs)
   1203 
   1204             # Detach underlying stream from wrapper so that it remains open in

~\.conda\envs\brian2genn\lib\site-packages\matplotlib\backends\backend_svg.py in _print_svg(self, filename, fh, dpi, bbox_inches_restore, **kwargs)
   1225             bbox_inches_restore=bbox_inches_restore)
   1226 
-> 1227         self.figure.draw(renderer)
   1228         renderer.finalize()
   1229 

~\.conda\envs\brian2genn\lib\site-packages\matplotlib\artist.py in draw_wrapper(artist, renderer, *args, **kwargs)
     36                 renderer.start_filter()
     37 
---> 38             return draw(artist, renderer, *args, **kwargs)
     39         finally:
     40             if artist.get_agg_filter() is not None:

~\.conda\envs\brian2genn\lib\site-packages\matplotlib\figure.py in draw(self, renderer)
   1707             self.patch.draw(renderer)
   1708             mimage._draw_list_compositing_images(
-> 1709                 renderer, self, artists, self.suppressComposite)
   1710 
   1711             renderer.close_group('figure')

~\.conda\envs\brian2genn\lib\site-packages\matplotlib\image.py in _draw_list_compositing_images(renderer, parent, artists, suppress_composite)
    133     if not_composite or not has_images:
    134         for a in artists:
--> 135             a.draw(renderer)
    136     else:
    137         # Composite any adjacent images together

~\.conda\envs\brian2genn\lib\site-packages\matplotlib\artist.py in draw_wrapper(artist, renderer, *args, **kwargs)
     36                 renderer.start_filter()
     37 
---> 38             return draw(artist, renderer, *args, **kwargs)
     39         finally:
     40             if artist.get_agg_filter() is not None:

~\.conda\envs\brian2genn\lib\site-packages\mpl_toolkits\mplot3d\axes3d.py in draw(self, renderer)
    290                 sorted(self.collections,
    291                        key=lambda col: col.do_3d_projection(renderer),
--> 292                        reverse=True)):
    293             col.zorder = zorder_offset + i
    294         for i, patch in enumerate(

~\.conda\envs\brian2genn\lib\site-packages\mpl_toolkits\mplot3d\axes3d.py in (col)
    289         for i, col in enumerate(
    290                 sorted(self.collections,
--> 291                        key=lambda col: col.do_3d_projection(renderer),
    292                        reverse=True)):
    293             col.zorder = zorder_offset + i

~\.conda\envs\brian2genn\lib\site-packages\mpl_toolkits\mplot3d\art3d.py in do_3d_projection(self, renderer)
    543         self.set_facecolors(fcs)
    544 
--> 545         ecs = (_zalpha(self._edgecolor3d, vzs) if self._depthshade else
    546                self._edgecolor3d)
    547         ecs = mcolors.to_rgba_array(ecs, self._alpha)

~\.conda\envs\brian2genn\lib\site-packages\mpl_toolkits\mplot3d\art3d.py in _zalpha(colors, zs)
    845     norm = Normalize(min(zs), max(zs))
    846     sats = 1 - norm(zs) * 0.7
--> 847     rgba = np.broadcast_to(mcolors.to_rgba_array(colors), (len(zs), 4))
    848     return np.column_stack([rgba[:, :3], rgba[:, 3] * sats])
    849 

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

~\.conda\envs\brian2genn\lib\site-packages\numpy\lib\stride_tricks.py in broadcast_to(array, shape, subok)
    180            [1, 2, 3]])
    181     """
--> 182     return _broadcast_to(array, shape, subok=subok, readonly=True)
    183 
    184 

~\.conda\envs\brian2genn\lib\site-packages\numpy\lib\stride_tricks.py in _broadcast_to(array, shape, subok, readonly)
    125     it = np.nditer(
    126         (array,), flags=['multi_index', 'refs_ok', 'zerosize_ok'] + extras,
--> 127         op_flags=['readonly'], itershape=shape, order='C')
    128     with it:
    129         # never really has writebackifcopy semantics

ValueError: operands could not be broadcast together with remapped shapes [original->remapped]: (0,4) and requested shape (2,4)

Expected outcome

A 3D scatter plot where the markers don't have edge colors.

Matplotlib version

  • Operating system: Windows 10
  • Matplotlib version: 3.1.3
  • Matplotlib backend (print(matplotlib.get_backend())): module://ipykernel.pylab.backend_inline
  • Python version: 3.7.7
  • Jupyter version (if applicable): core=4.6.3, notebook=6.0.3
  • Other libraries:

I installed from pip, if I remember. There's a possibility it was from conda forge
@jklymak
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jklymak commented Aug 13, 2020

Thanks for the report. This is a duplicate of #18020.

@jklymak jklymak closed this as completed Aug 13, 2020
@kjohnsen
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Oh, I searched issues beforehand and didn't see that. Cool.

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