Bug fix: number of photo-electron counts. (#498)

* Fixed bug in Cookiebox created by variable renaming in last PR.
* Updated the changelog.

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Co-authored-by: Danilo Ferreira de Lima <danilo.enoque.ferreira.de.lima@xfel.de>

Author: daniloefl

docs/changelog.md

@@ -74,6 +74,7 @@ Fixed:
   `uncertainty_method` parameter.
 - Fixed support for plotting images with zeros/negative numbers with
   [imshow2()][extra.utils.imshow2] and `lognorm=True` (!491).
+- Fixed counting threshold for `CookieboxCalibration` (!498).
 
 Changed:
 

src/extra/applications/cookiebox.py

@@ -187,7 +187,7 @@ def calc_mean(itr: Tuple[int, int], scan: Scan, xgm_data: xr.DataArray, tof: Dic
         tof_data = tof[tof_id].select_trains(by_id[train_ids])
         tof_data = tof_data.pulse_edges(pulse_dim='pulseIndex', threshold=count_threshold).reset_index()
 
-        bins = np.arange(0, n_samples+1)
+        bins = np.arange(0, count_samples+1)
         out_data, _ = np.histogram(tof_data.edge, bins=bins, weights=-tof_data.amplitude)
 
         out_data = xr.DataArray(out_data, dims=('sample'), coords={'sample': bins[:-1]})