From 2d21dc85d22e556c58be1087e2ab100820621689 Mon Sep 17 00:00:00 2001 From: Luca Marconato Date: Mon, 3 Nov 2025 16:50:18 +0100 Subject: [PATCH 1/2] fix table parameter visium reader --- .gitignore | 3 +++ src/spatialdata_io/readers/visium.py | 2 +- 2 files changed, 4 insertions(+), 1 deletion(-) diff --git a/.gitignore b/.gitignore index 32771d1c..8e8d30c7 100644 --- a/.gitignore +++ b/.gitignore @@ -36,5 +36,8 @@ node_modules/ .code-workspace # test datasets (e.g. Xenium ones) +# symlinks +data +# data folder data/ tests/data diff --git a/src/spatialdata_io/readers/visium.py b/src/spatialdata_io/readers/visium.py index 76a41898..c16fd2fc 100644 --- a/src/spatialdata_io/readers/visium.py +++ b/src/spatialdata_io/readers/visium.py @@ -253,7 +253,7 @@ def visium( rgb=None, ) - return SpatialData(images=images, shapes=shapes, table=table) + return SpatialData(images=images, shapes=shapes, tables={'table': table}) def _read_image(image_file: Path, imread_kwargs: dict[str, Any]) -> Any: From 20ca6303c3171d646a5873ea7e607f16df95ebde Mon Sep 17 00:00:00 2001 From: "pre-commit-ci[bot]" <66853113+pre-commit-ci[bot]@users.noreply.github.com> Date: Mon, 3 Nov 2025 15:50:56 +0000 Subject: [PATCH 2/2] [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci --- src/spatialdata_io/readers/visium.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/spatialdata_io/readers/visium.py b/src/spatialdata_io/readers/visium.py index c16fd2fc..a2f84ede 100644 --- a/src/spatialdata_io/readers/visium.py +++ b/src/spatialdata_io/readers/visium.py @@ -253,7 +253,7 @@ def visium( rgb=None, ) - return SpatialData(images=images, shapes=shapes, tables={'table': table}) + return SpatialData(images=images, shapes=shapes, tables={"table": table}) def _read_image(image_file: Path, imread_kwargs: dict[str, Any]) -> Any: