round and ch_values from_spot_data of IntensityTable expected Sequenc…

…e but got ndarray instead: replaced np.arange with range
spacetx · Mar 21, 2024 · b115d8e · b115d8e
1 parent 91db80d
commit b115d8e
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Showing 4 changed files with 7 additions and 7 deletions.
diff --git a/starfish/core/codebook/test/test_metric_decode.py b/starfish/core/codebook/test/test_metric_decode.py
@@ -26,8 +26,8 @@ def intensity_table_factory(data: np.ndarray=np.array([[[0, 3], [4, 0]]])) -> In
     intensity_table = IntensityTable.from_spot_data(
         data,
         SpotAttributes(spot_attributes_data),
-        ch_values=np.arange(data.shape[1]),
-        round_values=np.arange(data.shape[2]),
+        ch_values = range(data.shape[1]),
+        round_values = range(data.shape[2]),
     )
     return intensity_table
 

diff --git a/starfish/core/codebook/test/test_normalize_code_traces.py b/starfish/core/codebook/test/test_normalize_code_traces.py
@@ -23,8 +23,8 @@ def intensity_table_factory() -> IntensityTable:
 
     intensity_table = IntensityTable.from_spot_data(
         intensities, spot_attributes,
-        ch_values=np.arange(intensities.shape[1]),
-        round_values=np.arange(intensities.shape[2]),
+        ch_values = range(intensities.shape[1]),
+        round_values = range(intensities.shape[2]),
     )
     return intensity_table
 

diff --git a/starfish/core/codebook/test/test_per_round_max_decode.py b/starfish/core/codebook/test/test_per_round_max_decode.py
@@ -24,8 +24,8 @@ def intensity_table_factory(data: np.ndarray = np.array([[[0, 3], [4, 0]]])) ->
     spot_attributes = SpotAttributes(spot_attributes_data)
     intensity_table = IntensityTable.from_spot_data(
         data, spot_attributes,
-        round_values=np.arange(data.shape[1]),
-        ch_values=np.arange(data.shape[2]),
+        round_values = range(data.shape[1]),
+        ch_values = range(data.shape[2]),
     )
     return intensity_table
 

diff --git a/starfish/core/intensity_table/intensity_table.py b/starfish/core/intensity_table/intensity_table.py
@@ -321,7 +321,7 @@ def synthetic_intensities(
         assert 0 < data.max() <= 1
 
         intensities = cls.from_spot_data(
-            data, spot_attributes, np.arange(data.shape[1]), np.arange(data.shape[2]))
+            data, spot_attributes, range(data.shape[1]), range(data.shape[2]))
         return intensities
 
     @classmethod