apply the flatfield corr fix from #40

needed because of basicpy update
khanlab · Jul 17, 2024 · d9df6e1 · d9df6e1
1 parent 65e61eb
commit d9df6e1
Showing 1 changed file with 3 additions and 3 deletions.
diff --git a/workflow/scripts/apply_basic_flatfield_corr_zarr.py b/workflow/scripts/apply_basic_flatfield_corr_zarr.py
@@ -26,9 +26,9 @@
     with open(model_path / 'settings.json' ) as fp:
         model = json.load(fp)
 
-    profiles = np.load(model_path / 'profiles.npy')
-    model["flatfield"] = profiles[0]
-    model["darkfield"] = profiles[1]
+    profiles = np.load(model_path / 'profiles.npz')
+    model["flatfield"] = profiles['flatfield']
+    model["darkfield"] = profiles['darkfield']
 
     basic = BaSiC()
     basic.flatfield = resize(model['flatfield'],img_shape,preserve_range=True)