Merge pull request #131 from scverse/fix_tests

fix docs and tests
scverse · Mar 29, 2024 · 27c3b2f · 27c3b2f
2 parents 14aa693 + c4a57bb
commit 27c3b2f
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Showing 3 changed files with 4 additions and 2 deletions.
diff --git a/docs/conf.py b/docs/conf.py
@@ -98,6 +98,7 @@
     "xarray": ("https://docs.xarray.dev/en/stable/", None),
     "datatree": ("https://datatree.readthedocs.io/en/latest/", None),
     "shapely": ("https://shapely.readthedocs.io/en/stable/", None),
+    "imageio": ("https://imageio.readthedocs.io/en/stable/", None),
 }
 
 # List of patterns, relative to source directory, that match files and
@@ -125,6 +126,7 @@
     ("py:class", "Path"),
     ("py:class", "AnnData"),
     ("py:class", "SpatialData"),
+    ("py:func", "imageio.imread"),  # maybe this can be fixed
 ]
 
 

diff --git a/pyproject.toml b/pyproject.toml
@@ -24,6 +24,7 @@ urls.Home-page = "https://github.com/scverse/spatialdata-io"
 dependencies = [
     "anndata",
     "numpy",
+    "scanpy",
     "spatialdata",
     "scikit-image",
     "h5py",

diff --git a/src/spatialdata_io/readers/visium_hd.py b/src/spatialdata_io/readers/visium_hd.py
@@ -49,8 +49,7 @@ def visium_hd(
 
     .. seealso::
 
-        - `Space Ranger output
-            <https://support.10xgenomics.com/spatial-gene-expression/software/pipelines/latest/output/overview>`_.
+        - `Space Ranger output <https://support.10xgenomics.com/spatial-gene-expression/software/pipelines/latest/output/overview>`_.
 
     Parameters
     ----------