go.Scatter3d doesn't display a given tensor
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- Dominant language
- Python
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Description
Issue
While plotting an np.ndarray of type fp64, it is not displayed.
It is so funny that we could reproduce it only for one specific array.
Thigs that make the script work:
- If we add epsilon (as in the commented line), then the pointcloud is displayed properly.
- If we cast to fp32 it works.
- If we add a small value (0.000000000001 for example), it works.
Things that doesn't work:
- If we add or substract big values, like 0.4, 1 or 2, it doesn't work
- If we substract epsilon, it doesn't work
- if we add numbers larger than 0.000000000001, it doesnt' work even if tehy are small (0.000001 for example)
Environment
We tried this (and reproduced in at least 2 computers) with numpy 1.26.3 and plotly 5.18.0 on ubuntu 22
import numpy as np
import plotly.graph_objects as go
init = np.array(
[
[
-0.063,
-0.063,
0.0,
],
[
-0.063,
-0.021,
0.0,
],
[
-0.063,
0.021,
0.0,
],
[
-0.063,
0.063,
0.0,
],
[
-0.021,
-0.021,
0.0,
],
[
-0.021,
-0.063,
0.0,
],
[
-0.021,
0.021,
0.0,
],
[
-0.021,
0.063,
0.0,
],
[
0.021,
-0.063,
0.0,
],
[
0.021,
-0.021,
0.0,
],
[
0.021,
0.021,
0.0,
],
[
0.021,
0.063,
0.0,
],
[
0.063,
-0.063,
0.0,
],
[
0.063,
-0.021,
0.0,
],
[
0.063,
0.021,
0.0,
],
[
0.063,
0.063,
0.0,
],
]
)
rot_mat = [
[4.93038066e-32, -1.00000000e00, 2.22044605e-16],
[2.22044605e-16, 2.22044605e-16, 1.00000000e00],
[-1.00000000e00, 0.00000000e00, 2.22044605e-16],
]
transformed = (rot_mat @ init.T).T + np.array([0.5, 0.5, 0.5])
x, y, z = 0, 1, 2
idx = list(transformed.shape).index(3)
if idx < 0:
raise ValueError("Array must be [X,Y,Z] x N")
elif idx == 1:
array = transformed.transpose()
default_kwargs = dict(
mode="markers",
marker=dict(size=3, color="black"),
)
print(array.dtype)
# array[y]+=np.finfo(np.float64).eps
print(array.dtype)
print(array)
plot = go.Scatter3d(x=array[x], y=array[y], z=array[z], **default_kwargs)
default_kwargs = dict(
scene=dict(
xaxis=dict(title="X", range=[0, 2]),
yaxis=dict(title="Y", range=[0, 2]),
zaxis=dict(title="Z", range=[0, 2]),
),
)
layout = go.Layout(**default_kwargs)
fig = go.Figure(data=plot, layout=layout)
fig.show()
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Use the supplied reproduction script as the entry point and run it with numpy 1.26.3 and plotly 5.18.0 on Ubuntu 22. Compare the failing fp64 array with the working epsilon and fp32 variants, then trace the go.Scatter3d rendering path. Done means identifying the cause and adding a regression check showing that the given tensor is displayed.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- numpy, plotly, python
- Domain
- data-visualization
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 38/100