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Features to 0.3 release #420

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10 of 47 tasks
sofroniewn opened this issue Jul 15, 2019 · 4 comments
Open
10 of 47 tasks

Features to 0.3 release #420

sofroniewn opened this issue Jul 15, 2019 · 4 comments
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@sofroniewn
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@sofroniewn sofroniewn commented Jul 15, 2019

馃殌 Feature

This issue has some features moved over from our 0.2 release #301. They are considered more advanced topics that we'll likely be aiming to have explored or supported for our 0.3 release, which might be around Jun 1 2020.

Dims features:

  • Enable range mode for dims including slice / max_projection / crop (S/P/C)
  • Add play button to dimension sliders.
  • Support units in status update and scaler bar overlays
  • Add axes labels
  • Add axes shapes

File I/O:

  • Loading / saving shapes, points, vectors
  • Loading / saving surface
  • Loading custom image file types
  • Loading / saving entire viewer state to zarr

Rendering

  • 3D rendering of big data + image pyramids
  • 3D interactivity / drawing
  • Support mixed 2D and 3D rendering
  • Editing in labels pyramid
  • Lazy rendering

1D plots

  • Scatter, line, histogram plots
  • Live updating, with links

Colors / clims:

  • For image layer add a clims histogram
  • Add a colorbar

Animations:

  • Support for making animations.

Layers:

  • Support layer borders #298
  • Support draggable / resizable layers #299
  • Add text layer #593
  • add events on finishing adding shapes / markers / labels / refresh etc

Multicanvas:

  • Support multiple canvas with linked cameras
  • For grid mode + coupled zoom
  • Minimap when highly zoomed in
  • For XY, XZ, YZ + 3D views for people doing volumetric imaging

Provenance logging

  • Undo / redo buttons
  • History feature
  • Macro generation

Qt / stylings

  • autogenerate _qt_properties / _qt_controls from function annotations
  • display loading icon during start-up
  • Make side panels draggable, dockable
  • Support title bar (with editable title and proper stylings)
  • Status bar shows values from multiple layers
  • Add edit boxes next to sliders to set min / max

Typing / schema

  • Add typing system for images / shapes
  • Adopt a metadata schema compatible with xarray for images / shapes

Remote access

  • remote notebooks
  • web viewing
  • remote data with dask
  • ability to launch from jupyterhub with jupyterlab

Standalone app

  • Installable app made with PyInstaller

Testing

  • add performance benchmarks
  • add better UI tests

Tutorials and docs

  • better demo datasets with pooch
  • more application tutorials
@AhmetCanSolak
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@AhmetCanSolak AhmetCanSolak commented Sep 16, 2019

Hi @sofroniewn , how are you feeling about moving add play button to dimension sliders to 0.2.0 milestone? I can work on it after #520 and #496.

@GenevieveBuckley
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@GenevieveBuckley GenevieveBuckley commented Oct 28, 2019

Does "Support mixed 2D and 3D rendering" have an issue I can follow?

I often have a 3D volume (fluorescence microscopy), and a 2D image (scanning electron microscopy) from the same sample. It'd be really awesome if I could overlay the two.

They generally have very different angles of view from the detector to the sample, as well as very different pixel sizes which makes things kinda tricky.

@jni
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@jni jni commented Oct 28, 2019

Does "Support mixed 2D and 3D rendering" have an issue I can follow?

A quick search didn't turn up any, so feel free to create one. @sofroniewn has already done some of the leg-work here by allowing layers to have their own dims (dimensions) model, separate from the global one, so I think this one is less of an implementation and more of a UX challenge.

Layers can also have their own scaling and translation. In terms of e.g. 3D rotations or skew, I don't think we have a great story there yet, but I'm not sure.

If you could provide a small sample dataset, that would help enormously with development.

@sofroniewn
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@sofroniewn sofroniewn commented Jan 14, 2020

We're well underway moving towards these goals, and closing out some of the remaining issues from #301. I just wanted to highlight a couple key areas of work that we need to get done before we get close to having API stability, and having a solid foundation for plugins:

  • Use of colors / colormaps on models #782, #862

  • Points vs Text vs Annotation refactor and propagation of changes to Shapes, Vectors #858

  • 1D plot widgets + live updating #823

  • More interactivity on the base layer #772

  • Physical coordinates #763

  • Camera state / viewer serialization #852 and #851

  • Finalizing keybindings, mouse bindings, event systems #791 #793

  • Crop / project / slice mode #848, #7

  • Multicanvas support (linked ortho views, linked grid view) #760

  • FileIO for all layer types #379

  • Improve remote data support, remote dask server (?) #845 #654

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