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feat(Zarr): Identify RGB RGBA pixel types #489

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feat(Zarr): Identify RGB RGBA pixel types #489

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28 changes: 24 additions & 4 deletions src/IO/ZarrMultiscaleSpatialImage.js
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Original file line number Diff line number Diff line change
@@ -1,4 +1,4 @@
import { PixelTypes } from 'itk-wasm'
import { IntTypes, PixelTypes } from 'itk-wasm'

import MultiscaleSpatialImage from './MultiscaleSpatialImage'
import bloscZarrDecompress from '../Compression/bloscZarrDecompress'
Expand Down Expand Up @@ -147,13 +147,33 @@ const extractScaleSpacing = async dataSource => {

const components = info.arrayShape.get('c') ?? 1

const componentType = getComponentType(info.pixelArrayMetadata.dtype)

let pixelType = PixelTypes.Scalar
if (components !== 1) {
if (
components === 3 &&
!info.arrayShape.has('z') &&
componentType === IntTypes.Uint8
) {
pixelType = PixelTypes.RGB
} else if (
components === 4 &&
!info.arrayShape.has('z') &&
componentType === IntTypes.Uint8
) {
pixelType = PixelTypes.RGBA
} else {
pixelType = PixelTypes.VariableLengthVector
}
}

const imageType = {
// How many spatial dimensions? Count greater than 1, X Y Z elements because "axis" metadata not defined in ngff V0.1
dimension: ['x', 'y', 'z'].filter(dim => info.arrayShape.get(dim) > 1)
.length,
pixelType:
components === 1 ? PixelTypes.Scalar : PixelTypes.VariableLengthVector,
componentType: getComponentType(info.pixelArrayMetadata.dtype),
pixelType,
componentType,
components,
}

Expand Down