Feature: Affine transform handling from ome

[seankmartin]

No description provided.

[Copilot]

Pull request overview

This PR adds support for affine transformations in OME-Zarr 0.6+ format, introducing several new coordinate transformation types from RFC-5. The implementation extracts scaling factors from affine matrices and properly handles complex transformations including rotation, permutation, and sequences.

• Adds support for affine, rotation, mapAxis, and sequence transformations in OME-Zarr 0.6+
• Implements scale extraction from arbitrary affine matrices to properly handle non-uniform transformations
• Updates voxel size calculation to use affine matrix analysis instead of simple transform multiplication

Reviewed changes

Copilot reviewed 31 out of 32 changed files in this pull request and generated 1 comment.

Show a summary per file

File	Description
testdata/datasource/zarr/ome_zarr/all_0.6/simple/rotation.zarr/zarr.json	Test data for rotation transformation with coordinate system definition
testdata/datasource/zarr/ome_zarr/all_0.6/simple/affine.zarr/zarr.json	Test data for affine transformation with scale and translation matrix
testdata/datasource/zarr/ome_zarr/all_0.6/basic/translation.zarr/zarr.json	Test data for translation transformation
testdata/datasource/zarr/ome_zarr/all_0.6/basic/sequenceScaleTranslation.zarr/zarr.json	Test data for sequence transformation combining scale and translation
testdata/datasource/zarr/ome_zarr/all_0.6/basic/scale.zarr/zarr.json	Test data for scale transformation
testdata/datasource/zarr/ome_zarr/all_0.6/basic/identity.zarr/zarr.json	Test data for identity transformation
testdata/datasource/zarr/ome_zarr/all_0.6/axis_dependent/mapAxis.zarr/zarr.json	Test data for axis permutation transformation
testdata/datasource/zarr/ome_zarr/all_0.6/README.md	Documentation for test data source
src/util/affine.ts	New utility for extracting scales from affine matrices and computing relative transforms
src/util/affine.spec.ts	Comprehensive tests for affine matrix scale extraction
src/sliceview/frontend.ts	Updates voxel size calculation to use affine matrix scale extraction
src/datasource/zarr/ome.ts	Core implementation of OME-Zarr 0.6+ transformation parsing and validation
src/datasource/zarr/ome.spec.ts	Extensive tests for OME-Zarr 0.6 transformation parsing
src/datasource/zarr/frontend.ts	Updates to use base transform from multiscale metadata
src/datasource/zarr/codec/zstd/resolve.ts	Adds registration for "zstandard" codec name (0.6+ spec)
src/datasource/zarr/codec/zstd/decode.ts	Adds decoding support for "zstandard" codec name
python/tests/zarr_test.py	Integration tests for all supported OME-Zarr 0.6 transformations

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