Describe the bug
A clear and concise description of what the bug is.
I just created a new conda environment with the most recent spyglass version. I ran dj.Diagram(sgc.Session) - 1 + 2 in the 02_Insert_Data.ipynb and found below error. Error was resolved when I reinstalled compatible versions of pydot and networkx by pip install pydot==1.4.2 networkx==2.5.
---------------------------------------------------------------------------
ValueError Traceback (most recent call last)
File ~/anaconda3/envs/spyglass/lib/python3.9/site-packages/IPython/core/formatters.py:344, in BaseFormatter.__call__(self, obj)
342 method = get_real_method(obj, self.print_method)
343 if method is not None:
--> 344 return method()
345 return None
346 else:
File ~/anaconda3/envs/spyglass/lib/python3.9/site-packages/datajoint/diagram.py:440, in Diagram._repr_svg_(self)
439 def _repr_svg_(self):
--> 440 return self.make_svg()._repr_svg_()
File ~/anaconda3/envs/spyglass/lib/python3.9/site-packages/datajoint/diagram.py:428, in Diagram.make_svg(self)
425 def make_svg(self):
426 from IPython.display import SVG
--> 428 return SVG(self.make_dot().create_svg())
File ~/anaconda3/envs/spyglass/lib/python3.9/site-packages/datajoint/diagram.py:371, in Diagram.make_dot(self)
308 label_props = { # http://matplotlib.org/examples/color/named_colors.html
309 None: dict(
310 shape="circle",
(...)
364 ),
365 }
366 node_props = {
367 node: label_props[d["node_type"]]
368 for node, d in dict(graph.nodes(data=True)).items()
369 }
--> 371 dot = nx.drawing.nx_pydot.to_pydot(graph)
372 for node in dot.get_nodes():
373 node.set_shape("circle")
File ~/anaconda3/envs/spyglass/lib/python3.9/site-packages/networkx/drawing/nx_pydot.py:311, in to_pydot(N)
300 raise_error = (
301 _check_colon_quotes(u)
302 or _check_colon_quotes(v)
(...)
308 )
309 )
310 if raise_error:
--> 311 raise ValueError(
312 f'Node names and attributes should not contain ":" unless they are quoted with "".\
313 For example the string \'attribute:data1\' should be written as \'"attribute:data1"\'.\
314 Please refer https://github.com/pydot/pydot/issues/258'
315 )
316 edge = pydot.Edge(u, v, **str_edgedata)
317 P.add_edge(edge)
ValueError: Node names and attributes should not contain ":" unless they are quoted with "". For example the string 'attribute:data1' should be written as '"attribute:data1"'. Please refer https://github.com/pydot/pydot/issues/258
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Error Stack
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```
Expected behavior
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Additional context
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Describe the bug A clear and concise description of what the bug is.
I just created a new conda environment with the most recent spyglass version. I ran
dj.Diagram(sgc.Session) - 1 + 2
in the 02_Insert_Data.ipynb and found below error. Error was resolved when I reinstalled compatible versions ofpydot
andnetworkx
bypip install pydot==1.4.2 networkx==2.5
.To Reproduce Steps to reproduce the behavior:
Error Stack
```python # Paste the error stack trace here ```Expected behavior A clear and concise description of what you expected to happen.
Screenshots If applicable, add screenshots to help explain your problem.
Additional context Add any other context about the problem here.