np.array fix

angelolab · Aug 15, 2023 · d32834d · d32834d
1 parent 8c34b21
commit d32834d
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Showing 2 changed files with 7 additions and 2 deletions.
diff --git a/src/toffy/image_stitching.py b/src/toffy/image_stitching.py
@@ -243,7 +243,12 @@ def rescale_image(img_data, scale, save_path=None):
  # rescale data while preserving values
  data_type = img_data.dtype
  rescaled_data = transform.rescale(
- img_data, scale, mode="constant", preserve_range=True, order=0, anti_aliasing=False
+ np.array(img_data),
+ scale,
+ mode="constant",
+ preserve_range=True,
+ order=0,
+ anti_aliasing=False,
  )
  rescaled_data = rescaled_data.astype(data_type)
 

diff --git a/tests/image_stitching_test.py b/tests/image_stitching_test.py
@@ -303,7 +303,7 @@ def test_fix_image_resolutions(mocked_print):
  with tempfile.TemporaryDirectory() as tmpdir:
  channel_list = ["Au", "CD3", "CD4", "CD8", "CD11c"]
  fov_list = ["fov-1-scan-1", "fov-2-scan-1", "fov-3-scan-1", "fov-4-scan-1"]
- test_utils._write_tifs(tmpdir, fov_list, channel_list, (10, 10), "", False, int)
+ test_utils._write_tifs(tmpdir, fov_list, channel_list, (10, 10), "", False, "uint32")
 
  # test no fovs changes
  resolution_data = pd.DataFrame(