Metadata for color and contrast limits
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enhancement
- Dominant language
- Python
- Stars
- 171
- Forks
- 75
- Avg merge
- 2d 3h
- Merged PRs (30d)
- 20
Description
@joshmoore @will-moore
It would be great to add metadata specifications for colour and contrastLimits (aka displayRange).
Below an example of how I am opening the data with BigDataViewer and how I am setting the colours, thus showing the kind of information I would need:
OMEZarrS3Reader reader = new OMEZarrS3Reader( "https://s3.embassy.ebi.ac.uk", "us-west-2", "idr" );
SpimData image = reader.read( "zarr/v0.1/6001237.zarr" );
List< BdvStackSource< ? > > sources = BdvFunctions.show( image );
sources.get( 0 ).setColor( new ARGBType( ARGBType.rgba( 0,0,255,255 ) ) );
sources.get( 0 ).setDisplayRange( 0, 3000 );
sources.get( 1 ).setColor( new ARGBType( ARGBType.rgba( 0,255,0,255 ) ) );
sources.get( 1 ).setDisplayRange( 0, 3000 );
sources.get( 2 ).setColor( new ARGBType( ARGBType.rgba( 255,0,0,255 ) ) );
sources.get( 2 ).setDisplayRange( 0, 3000 );
sources.get( 3 ).setColor( new ARGBType( ARGBType.rgba( 255,255,255,255 ) ) );
sources.get( 3 ).setDisplayRange( 0, 3000 );
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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
Start by reviewing the existing NGFF metadata specifications and the discussion on this issue, using the Java/BigDataViewer example as the expected use case. Done means reaching agreement on metadata for colour and contrastLimits (also called displayRange) and documenting the resulting specification.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- java
- Domain
- documentation
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 30/100