Merge pull request #377 from nilchia/fix_codex

LucaMarconato · web-flow · commit 433014e81d40 · 2026-02-26T20:05:27.000+01:00
fix codex reader - table
diff --git a/src/spatialdata_io/readers/codex.py b/src/spatialdata_io/readers/codex.py
@@ -85,10 +85,10 @@ def codex(
                 rgb=None,
             )
         }
-        sdata = SpatialData(images=images, shapes={str(region): shapes}, table=table)
+        sdata = SpatialData(images=images, shapes={str(region): shapes}, tables={"table": table})
     else:
         logger.warning("Cannot find .tif file. Will build spatialdata with shapes and table only.")
-        sdata = SpatialData(shapes={str(region): shapes}, table=table)
+        sdata = SpatialData(shapes={str(region): shapes}, tables={"table": table})
 
     return _set_reader_metadata(sdata, "codex")
 

Original file line number	Diff line number	Diff line change
`@@ -85,10 +85,10 @@ def codex(`
`85`	`85`	`rgb=None,`
`86`	`86`	`)`
`87`	`87`	`}`
`88`		`- sdata = SpatialData(images=images, shapes={str(region): shapes}, table=table)`
	`88`	`+ sdata = SpatialData(images=images, shapes={str(region): shapes}, tables={"table": table})`
`89`	`89`	`else:`
`90`	`90`	`logger.warning("Cannot find .tif file. Will build spatialdata with shapes and table only.")`
`91`		`- sdata = SpatialData(shapes={str(region): shapes}, table=table)`
	`91`	`+ sdata = SpatialData(shapes={str(region): shapes}, tables={"table": table})`
`92`	`92`
`93`	`93`	`return _set_reader_metadata(sdata, "codex")`
`94`	`94`