Interfaces between napari and pymeshlab library to allow import, export and construction of surfaces.

Last update: Oct 12, 2022

Related tags

Miscellaneous napari-pymeshlab

Overview

napari-pymeshlab

Interfaces between napari and the pymeshlab library to allow import, export and construction of surfaces.

This is a WIP and feature requests are welcome. Please check PyMeshLab for possible features

Feature list

Read/write .3ds, .apts, .asc, .bre, .ctm, .dae, .e57, .es, .fbx, .glb, .gltf, .obj, .off, .pdb, .ply, .ptx, .qobj, .stl, .vmi, .wrl, .x3d, .x3dv
Screened Poisson Surface Reconstruction

Installation

You can install napari-pymeshlab via pip:

pip install napari-pymeshlab

Contributing

Contributions are very welcome. Tests can be run with tox, please ensure the coverage at least stays the same before you submit a pull request.

License

Distributed under the terms of the MIT license, "napari-pymeshlab" is free and open source software

Issues

If you encounter any problems, please file an issue along with a detailed description.

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Comments

Calling the reader

First of all, thanks for the plugin.

I have an obj surface that I want to import and visualize in napari, however, I tried:

from napari_pymeshlab import get_mesh_reader
surface = ("E:/3D-Edited.obj")
viewer.add_surface(get_mesh_reader(surface), name='surface')

But I got the following error:

---------------------------------------------------------------------------
TypeError                                 Traceback (most recent call last)
Input In [3], in <module>
----> 1 viewer.add_surface(get_mesh_reader(surface), name='surface')

File ~\.conda\envs\bio11\lib\site-packages\napari\components\viewer_model.py:4, in add_surface(self, data, colormap, contrast_limits, gamma, name, metadata, scale, translate, rotate, shear, affine, opacity, blending, shading, visible, cache, experimental_clipping_planes, wireframe, normals)
      1 from __future__ import annotations
      3 import inspect
----> 4 import itertools
      5 import os
      6 import warnings

File ~\.conda\envs\bio11\lib\site-packages\napari\layers\surface\surface.py:169, in Surface.__init__(self, data, colormap, contrast_limits, gamma, name, metadata, scale, translate, rotate, shear, affine, opacity, blending, shading, visible, cache, experimental_clipping_planes, wireframe, normals)
    145 def __init__(
    146     self,
    147     data,
   (...)
    166     normals=None,
    167 ):
--> 169     ndim = data[0].shape[1]
    171     super().__init__(
    172         data,
    173         ndim,
   (...)
    185         experimental_clipping_planes=experimental_clipping_planes,
    186     )
    188     self.events.add(
    189         interpolation=Event,
    190         rendering=Event,
    191         shading=Event,
    192     )

TypeError: 'function' object is not subscriptable
C:\Users\Linux\.conda\envs\bio11\lib\site-packages\ipykernel\kernelbase.py:674: RuntimeWarning: coroutine 'InProcessKernel._abort_queues' was never awaited!`

I know is a newbie question.

Thanks in advance for your help.

opened by EdwinHernandezG 5

Add functions for smoothing surfaces and measuring Gaussian curvature
Hi Zach @zacsimile ,

I'm just sending a PR with some functionality. I had developed it in another plugin, but not published. I think these functions would fit well here.

convex_hull

laplacian_smooth

taubin_smooth

simplification_clustering_decimation

colorize_curvature_apss

Furthermore, I'm suggesting to change the license of your plugin to GPL, because pymeshlab is licensed GPL. So we kind of have to use GPL as well. :-/ https://github.com/cnr-isti-vclab/PyMeshLab/blob/master/LICENSE

Please let me know what you think!

Best, Robert
opened by haesleinhuepf 4
napari-hub website lacks documentation

Hi @zacsimile ,

the napari-hub page of the plugin lacks documentation. If you delete .napari/description.md and push an update to pypi, then the readme.md will be shown.

If you're busy, I'm happy to send a PR :-)

Best, Robert

opened by haesleinhuepf 3
fix link to screenshot

Hi @zacsimile ,

this should fix the broken link to the image on the napari hub. It's always good if the screenshots are visible ;-)

closes #3

Also for fixing this, a deployment to pypi is necessary.

Thanks! Robert

opened by haesleinhuepf 0

Releases(v0.0.5)

v0.0.5(Mar 29, 2022)
What's Changed

Add functions for smoothing surfaces and measuring Gaussian curvature by @haesleinhuepf in https://github.com/zacsimile/napari-pymeshlab/pull/1

New Contributors

@haesleinhuepf made their first contribution in https://github.com/zacsimile/napari-pymeshlab/pull/1

Full Changelog: https://github.com/zacsimile/napari-pymeshlab/compare/v0.0.4...v0.0.5
Source code(tar.gz)
Source code(zip)
v0.0.4(Jan 18, 2022)

Fix writer, add bunny data, include project links in setup.cfg.
Source code(tar.gz)
Source code(zip)
v0.0.3(Jan 14, 2022)

Fix bug in SPR
Source code(tar.gz)
Source code(zip)
v0.0.2(Jan 14, 2022)

Source code(tar.gz)
Source code(zip)
v0.0.1(Jan 14, 2022)

Source code(tar.gz)
Source code(zip)

Owner

Zach Marin

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