DiamondLightSource · dkazanc · Jan 16, 2026 · Jan 16, 2026
diff --git a/docs/source/api/httomolibgpu.cuda_kernels.rst b/docs/source/api/httomolibgpu.cuda_kernels.rst
diff --git a/docs/source/api/httomolibgpu.cupywrapper.rst b/docs/source/api/httomolibgpu.cupywrapper.rst
diff --git a/docs/source/api/httomolibgpu.misc.corr.rst b/docs/source/api/httomolibgpu.misc.corr.rst
diff --git a/docs/source/api/httomolibgpu.misc.denoise.rst b/docs/source/api/httomolibgpu.misc.denoise.rst
diff --git a/docs/source/api/httomolibgpu.misc.morph.rst b/docs/source/api/httomolibgpu.misc.morph.rst
diff --git a/docs/source/api/httomolibgpu.misc.rescale.rst b/docs/source/api/httomolibgpu.misc.rescale.rst
diff --git a/docs/source/api/httomolibgpu.misc.rst b/docs/source/api/httomolibgpu.misc.rst
diff --git a/docs/source/api/httomolibgpu.prep.alignment.rst b/docs/source/api/httomolibgpu.prep.alignment.rst
diff --git a/docs/source/api/httomolibgpu.prep.normalize.rst b/docs/source/api/httomolibgpu.prep.normalize.rst
diff --git a/docs/source/api/httomolibgpu.prep.phase.rst b/docs/source/api/httomolibgpu.prep.phase.rst
diff --git a/docs/source/api/httomolibgpu.prep.rst b/docs/source/api/httomolibgpu.prep.rst
diff --git a/docs/source/api/httomolibgpu.prep.stripe.rst b/docs/source/api/httomolibgpu.prep.stripe.rst
diff --git a/docs/source/api/httomolibgpu.recon.algorithm.rst b/docs/source/api/httomolibgpu.recon.algorithm.rst
diff --git a/docs/source/api/httomolibgpu.recon.rotation.rst b/docs/source/api/httomolibgpu.recon.rotation.rst
diff --git a/docs/source/api/httomolibgpu.recon.rst b/docs/source/api/httomolibgpu.recon.rst
diff --git a/docs/source/api/httomolibgpu.rst b/docs/source/api/httomolibgpu.rst
diff --git a/docs/source/scripts/methods_to_generate_images.py b/docs/source/scripts/methods_to_generate_images.py
@@ -21,7 +21,6 @@
 import argparse
 from typing import Union
 import numpy as np
-import cupy
 import cupy as cp
 from PIL import Image
 
@@ -106,11 +105,13 @@ def run_methods(path_to_data: str, output_folder: str) -> int:
     ## %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
     methods_name = "normalisation"
     print("___{}___".format(methods_name))
-    from httomolibgpu.prep.normalize import normalize
+    from httomolibgpu.prep.normalize import dark_flat_field_correction, minus_log
 
-    data_normalized = normalize(
-        cp.asarray(proj_raw), cp.asarray(flats), cp.asarray(darks), minus_log=True
+    data_normalized = dark_flat_field_correction(
+        cp.asarray(proj_raw), cp.asarray(flats), cp.asarray(darks)
     )
+
+    data_normalized = minus_log(data_normalized)
     data_normalized_np = data_normalized.get()
 
     max_scale_data_normalized = np.max(data_normalized_np)

diff --git a/httomolibgpu/prep/normalize.py b/httomolibgpu/prep/normalize.py
@@ -47,7 +47,7 @@ def dark_flat_field_correction(
     cutoff: float = 10.0,
 ) -> cp.ndarray:
     """
-    Normalize raw projection data using the flat and dark field projections.
+    Perform dark/flat field correction of raw projection data.
 
     Parameters
     ----------
@@ -67,7 +67,7 @@ def dark_flat_field_correction(
             Returns
     -------
     cp.ndarray
-        Normalised by dark/flat fields 3D tomographic data as a CuPy array.
+        dark/flat field corrected 3D tomographic data as a CuPy array.
     """
     _check_valid_input_normalise(data, flats, darks)