zarr v3 support (#1040)

LucaMarconato · web-flow · commit 7a6581058dbf · 2025-10-07T18:08:42.000+02:00
diff --git a/pyproject.toml b/pyproject.toml
@@ -70,7 +70,7 @@ dependencies = [
    "tqdm>=4.50.2",
    "validators>=0.18.2",
    "xarray>=2024.10.0",
-   "zarr>=2.6.1,<3.0.0",
+   "zarr>=2.6.1",
    "spatialdata>=0.2.5",
 ]
 
@@ -281,4 +281,4 @@ exclude_lines = [
 show_missing = true
 precision = 2
 skip_empty = true
-sort = "Miss"
+sort = "Miss"
diff --git a/tests/conftest.py b/tests/conftest.py
@@ -376,7 +376,7 @@ def sdata_mask_graph():
         "region_key": "region",
         "instance_key": "instance_id",
     }
-    return sd.SpatialData.from_elements_dict(
+    return sd.SpatialData.init_from_elements(
         {
             "circles": sd.models.ShapesModel().parse(points_df),
             "polygon": sd.models.ShapesModel().parse(polygon_df),

Original file line number	Diff line number	Diff line change
`@@ -376,7 +376,7 @@ def sdata_mask_graph():`
`376`	`376`	`"region_key": "region",`
`377`	`377`	`"instance_key": "instance_id",`
`378`	`378`	`}`
`379`		`- return sd.SpatialData.from_elements_dict(`
	`379`	`+ return sd.SpatialData.init_from_elements(`
`380`	`380`	`{`
`381`	`381`	`"circles": sd.models.ShapesModel().parse(points_df),`
`382`	`382`	`"polygon": sd.models.ShapesModel().parse(polygon_df),`