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Improve plotting#157

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schlegelp merged 55 commits intomasternavis-org/navis:masterfrom pygfx2navis-org/navis:pygfx2Copy head branch name to clipboardAug 29, 2024

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Commits on Aug 23, 2024

• improve tree2meshneuron:

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Commits on Aug 26, 2024

• improve plot2d():

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Commits on Aug 27, 2024

• improve plot3d:

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• update requirements:

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• plot2d: minor fixes/improvements

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• setup: treat "flybrains" and "cloud-volume" as specialised extras

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• docs: render "Figure parameters" and "Object parameters" as sections

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• plot3d: fix bug in logic whether viewer already exists

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• plot3d: pass camera and control to octarine Viewer

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• plot3d: clear Octarine Viewer only once

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• plot3d: pass volumes to .add_mesh instead of .add_volume

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• plot3d: avoid passing Viewer-related parameters to .add_neurons

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• plot3d: update docstring

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• plot2d: fix issue when depth_coloring=True and method='3d'

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• plot3d: fix issue when adding Volumes to octarine Viewer

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• vputils: fix doctest

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• ddd module: some formatting fixes

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• plot3d: add error message in case backend library not installed

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• ddd module: delay import of plotly until needed

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• CI tests: use navis[all] install

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• CI tests: add missing dev install

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• requirements: set minimum versions for octarine3d and the navis plugin

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• bump octarine3d minimum version 0.2.2 - >0.2.3

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• update plotting tutorial

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• update plotting tutorial again

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• fix neuron tutorial

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• plot2d: set default method back to "3d"

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• fix neuron tutorial (again)

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• CI: add install navis with[all] for notebook test

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• fix headless tests

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Commits on Aug 28, 2024

• CI: test install from checkout instead of hard-coded Github url

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• CI: drop no-igraph from test matrix

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• CI: fix notebook tests

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• requirements: install open3d only if Python version < 3.12

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• CI: try fixing WGPU adapter issue

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• CI: add timeout to hanging (?) test

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• CI: temporarily suspend test_lookupdistdotbuilder_builds

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• CI: try fixing WGPU backend error

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• CI: try tests without xvfb

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• CI: try fixing tests 2

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• CI: try using only plotly backend

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• doctests: only check vispy and plotly modules if importable

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• CI: skip a broken doctest

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• plot3d: add offscreen parameter and respect NAVIS_HEADLESS env variable

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• CI tests: install octarine

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• CI tests: use extras all

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• plot3d: use Settings for tracking viewer-specific settings

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• fix utils.check_vispy

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• plot3d: add missing viewer-specific parameter for octarine backend

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• docs: fix plotting tutorial

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• fix two small bugs in plot2d

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• dotprops2plotly: use correct settings

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Commits on Aug 29, 2024

• plot3d: fix Octarine settings parsing

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• Settings: do not list methods as properties

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• Settings: add name attribute (for error message)

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