Make module names all lowercase

src/spatialexperiment/__init__.py

@@ -16,8 +16,8 @@
     del version, PackageNotFoundError
 
 from .io import read_tenx_visium
-from .SpatialExperiment import SpatialExperiment
-from .SpatialImage import (
+from .spatialexperiment import SpatialExperiment
+from .spatialimage import (
     LoadedSpatialImage,
     RemoteSpatialImage,
     StoredSpatialImage,

src/spatialexperiment/_combineutils.py

@@ -7,7 +7,6 @@
 
 from biocframe import BiocFrame
 import biocutils as ut
-from spatialexperiment import SpatialExperiment
 
 
 def _append_indices_to_samples(bframes: List[BiocFrame]) -> List[BiocFrame]:
@@ -30,7 +29,7 @@ def _append_indices_to_samples(bframes: List[BiocFrame]) -> List[BiocFrame]:
     return modified_bframes
 
 
-def merge_spatial_frames(x: List[SpatialExperiment], relaxed: bool = False) -> Tuple[BiocFrame, BiocFrame]:
+def merge_spatial_frames(x: List["SpatialExperiment"], relaxed: bool = False) -> Tuple[BiocFrame, BiocFrame]:
     """Merge column data and image data from multiple ``SpatialExperiment`` objects.
 
     If duplicate sample IDs exist across objects, appends indices to make them unique.

src/spatialexperiment/_imgutils.py

@@ -7,7 +7,7 @@
 import numpy as np
 from PIL import Image
 from biocframe import BiocFrame
-from .SpatialImage import construct_spatial_image_class
+from .spatialimage import construct_spatial_image_class
 
 __author__ = "keviny2"
 __copyright__ = "keviny2"

src/spatialexperiment/_initutils.py

@@ -3,7 +3,7 @@
 
 from biocframe import BiocFrame
 from PIL import Image
-from .SpatialImage import construct_spatial_image_class
+from .spatialimage import construct_spatial_image_class
 from summarizedexperiment._frameutils import _sanitize_frame
 
 __author__ = "keviny2"

src/spatialexperiment/io/tenx_visium.py

@@ -9,7 +9,7 @@
 from biocframe import BiocFrame
 import biocutils as ut
 from singlecellexperiment import read_tenx_mtx
-from ..SpatialExperiment import SpatialExperiment
+from ..spatialexperiment import SpatialExperiment
 from .._imgutils import construct_img_data
 from .._initutils import construct_spatial_coords_from_names
 

src/spatialexperiment/SpatialExperiment.py → src/spatialexperiment/spatialexperiment.py

@@ -29,7 +29,7 @@
     _validate_spatial_coords,
     _validate_spatial_coords_names,
 )
-from .SpatialImage import VirtualSpatialImage, construct_spatial_image_class
+from .spatialimage import VirtualSpatialImage, construct_spatial_image_class
 
 __author__ = "keviny2"
 __copyright__ = "keviny2"

tests/test_get_img.py

@@ -2,7 +2,7 @@
 from copy import deepcopy
 import numpy as np
 
-from spatialexperiment.SpatialImage import VirtualSpatialImage
+from spatialexperiment import VirtualSpatialImage
 
 __author__ = "keviny2"
 __copyright__ = "keviny2"

tests/test_img_raster.py

@@ -2,11 +2,11 @@
 from copy import deepcopy
 from PIL import Image
 import numpy as np
-from spatialexperiment import construct_spatial_image_class
-from spatialexperiment.SpatialImage import (
+from spatialexperiment import (
     LoadedSpatialImage,
     StoredSpatialImage,
-    RemoteSpatialImage
+    RemoteSpatialImage,
+    construct_spatial_image_class
 )
 
 def test_loaded_spatial_image_img_raster():

tests/test_img_source.py

@@ -3,11 +3,11 @@
 from pathlib import Path
 from PIL import Image
 import numpy as np
-from spatialexperiment import construct_spatial_image_class
-from spatialexperiment.SpatialImage import (
+from spatialexperiment import (
     LoadedSpatialImage,
     StoredSpatialImage,
-    RemoteSpatialImage
+    RemoteSpatialImage,
+    construct_spatial_image_class
 )
 
 def test_loaded_spatial_image_img_source():

tests/test_spi.py

@@ -1,11 +1,11 @@
 import pytest
 from PIL import Image
-from spatialexperiment import construct_spatial_image_class
-from spatialexperiment.SpatialImage import (
+from spatialexperiment import (
     VirtualSpatialImage,
     StoredSpatialImage,
     LoadedSpatialImage,
     RemoteSpatialImage,
+    construct_spatial_image_class
 )
 
 __author__ = "keviny2"