NGFF v06 transformations - #1182

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Tomaz-Vieira wants to merge 30 commits into

transformation_managerfrom

feature/ngff_v06_transforms

Commits on Sep 15, 2026

Transformation manager foundation (#1164)
ajkswamy
committed
d94abfd
Creates the graph module based on the Ngff* classes

Tomaz-Vieira
authored and
ajkswamy
committed
5aaf4ec
addresses some PR comments, simplifies MapAxis

Tomaz-Vieira
authored and
ajkswamy
committed
2379e27
Adds ProjectAxisEdge, makes inverse return optional

Tomaz-Vieira
authored and
ajkswamy
committed
0d4140b
Moves exceptions to exceptions.py, edge names default to None

Tomaz-Vieira
authored and
ajkswamy
committed
a0582e8
Use custom exceptions everywhere, adds Raises to docstrings

Tomaz-Vieira
authored and
ajkswamy
committed
9d9315b
Fix Affine.from_affine_matrix slicing]

Tomaz-Vieira
authored and
ajkswamy
committed
96066f3
Fix coords bug when reading from OMEZarrMultiscale. Some cleanup

Tomaz-Vieira
authored and
ajkswamy
committed
b15281e
Adds test for parsing OMEZarrMultiscale

Tomaz-Vieira
authored and
ajkswamy
committed
4cba32e
Adds transformations tests, fixes some slicing bugs

authored and
ajkswamy
committed
c733658
Adds basic .sel test to parsed multiscale

Tomaz-Vieira
authored and
ajkswamy
committed
8ee025e
Removes unused class

Tomaz-Vieira
authored and
ajkswamy
committed
ad1d809
Adds more slicing tests to parsed multiscales

Tomaz-Vieira
authored and
ajkswamy
committed
99ecb22
Adds/fixes comments in try_parse_ngff06_multiscales

Tomaz-Vieira
authored and
ajkswamy
committed
7361863
Removes to_model methods for now

Tomaz-Vieira
authored and
ajkswamy
committed
0718fb7
Moves AxisParsingException to exceptions.py

Tomaz-Vieira
authored and
ajkswamy
committed
df63609
Moves AxisParsingException back into vert.py to prevent circular imports

Tomaz-Vieira
authored and
ajkswamy
committed
76f7c6b
Fixes docstrings, list exceptions in "Raises"

authored and
ajkswamy
committed
4f725b1
Incorporates parse_project_axis

Tomaz-Vieira
authored and
ajkswamy
committed
9591fa2
Fixes parsing translatiion model getting bad name

authored and
ajkswamy
committed
17eae96
Adds test for parsing *Edge transforms from ngff

authored and
ajkswamy
committed
3a42bef
Fixes dependencies on ome-zarr and ome-zarr-models

Tomaz-Vieira
authored and
ajkswamy
committed
2849a29
Cleans up transform_points for rotation and affine

Tomaz-Vieira
authored and
ajkswamy
committed
4c6c8d9
Fixes renamed fields in ome-zarr-models

Tomaz-Vieira
authored and
ajkswamy
committed
0c6d7b1
Use frozen dataclasses for CoordSystems and Axis. Fix MapAxisEdge

Tomaz-Vieira
authored and
ajkswamy
committed
113cf7d
Enforces Rotation matrix is orthonormal with det==1

Tomaz-Vieira
authored and
ajkswamy
committed
876c176

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NGFF v06 transformations - #1182

NGFF v06 transformations#1182
Tomaz-Vieira wants to merge 30 commits into
transformation_managerfrom
feature/ngff_v06_transforms

Commits on Sep 15, 2026

Transformation manager foundation (#1164)

Creates the graph module based on the Ngff* classes

addresses some PR comments, simplifies MapAxis

Adds ProjectAxisEdge, makes inverse return optional

Moves exceptions to exceptions.py, edge names default to None

Use custom exceptions everywhere, adds Raises to docstrings

Fix Affine.from_affine_matrix slicing]

Fix coords bug when reading from OMEZarrMultiscale. Some cleanup

Adds test for parsing OMEZarrMultiscale

Adds transformations tests, fixes some slicing bugs

Adds basic .sel test to parsed multiscale

Removes unused class

Adds more slicing tests to parsed multiscales

Adds/fixes comments in try_parse_ngff06_multiscales

Removes to_model methods for now

Moves AxisParsingException to exceptions.py

Moves AxisParsingException back into vert.py to prevent circular imports

Fixes docstrings, list exceptions in "Raises"

Incorporates parse_project_axis

Fixes parsing translatiion model getting bad name

Adds test for parsing *Edge transforms from ngff

Fixes dependencies on ome-zarr and ome-zarr-models

Cleans up transform_points for rotation and affine

Fixes renamed fields in ome-zarr-models

Use frozen dataclasses for CoordSystems and Axis. Fix MapAxisEdge

Enforces Rotation matrix is orthonormal with det==1

Commits on Sep 21, 2026

Bump xarray so we can use RangeIndex

Removes try-from_model_or_defaul for now

Emits warning on AffineEdge.inverse when condition is big

Uses matrix in exceptions