Merge pull request #524 from OpenCOMPES/new-tutorials-for-hextof-fixes

New tutorials for hextof fixes
OpenCOMPES · Nov 21, 2024 · f5e5b63 · f5e5b63
2 parents be713b6 + 8990a64
commit f5e5b63
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Showing 8 changed files with 350 additions and 1,403 deletions.
diff --git a/.cspell/custom-dictionary.txt b/.cspell/custom-dictionary.txt
@@ -172,6 +172,7 @@ levelname
 linalg
 linekwds
 linesegkwds
+linestyles
 linewidth
 linspace
 literalinclude
@@ -325,6 +326,7 @@ scandir
 scatt
 scatterkwds
 scicat
+scipy
 SDIAG
 sdir
 segs
@@ -341,6 +343,7 @@ stepsize
 subdir
 subdirs
 subfolders
+suptitle
 symscores
 targcenter
 termorder
@@ -367,6 +370,7 @@ TZCYXS
 tzoffset
 ubid
 UDLD
+ufunc
 unbinned
 uncategorised
 undoc
@@ -375,6 +379,7 @@ varnames
 venv
 verts
 viewcode
+vlines
 vmax
 voxels
 VTOF

diff --git a/sed/config/NXmpes_config-HEXTOF_full_Jul2024.json b/sed/config/NXmpes_config-HEXTOF_full_Jul2024.json
diff --git a/sed/config/flash_example_config.yaml b/sed/config/flash_example_config.yaml
@@ -186,9 +186,6 @@ dataframe:
 # metadata:
 #   scicat_url: <URL>
 #   scicat_token: <TOKEN>
-metadata:
-  scicat_url: "https://scicat-flash-test1.desy.de/api/v3"
-  scicat_token: "eyJhbGciOiJIUzI1NiIsInR5cCI6IkpXVCJ9.eyJfaWQiOiI2Mzc0YmYyMmE4NWQ0N2QwMGE5MWRlN2MiLCJ1c2VybmFtZSI6Imt1dG55YWtkIiwiZW1haWwiOiJkbXl0cm8ua3V0bnlha2hvdkBkZXN5LmRlIiwiYXV0aFN0cmF0ZWd5IjoibG9jYWwiLCJpZCI6IjYzNzRiZjIyYTg1ZDQ3ZDAwYTkxZGU3YyIsInVzZXJJZCI6IjYzNzRiZjIyYTg1ZDQ3ZDAwYTkxZGU3YyIsImlhdCI6MTcyMDUxMzEyMCwiZXhwIjoxNzIwNTU2MzIwfQ.UhqLBoKVF-QM9AhXhpIe26bsJu5wD8uRaO9641uAN-I"
 
 # The nexus collection routine shall be finalized soon for both instruments
 nexus:

diff --git a/sed/core/processor.py b/sed/core/processor.py
@@ -1343,14 +1343,15 @@ def calibrate_energy_axis(
             **kwds,
         )
         if verbose:
-            print("Quality of Calibration:")
-            self.ec.view(
-                traces=self.ec.traces_normed,
-                xaxis=self.ec.calibration["axis"],
-                align=True,
-                energy_scale=energy_scale,
-                backend="bokeh",
-            )
+            if self.ec.traces_normed is not None:
+                print("Quality of Calibration:")
+                self.ec.view(
+                    traces=self.ec.traces_normed,
+                    xaxis=self.ec.calibration["axis"],
+                    align=True,
+                    energy_scale=energy_scale,
+                    backend="bokeh",
+                )
             print("E/TOF relationship:")
             self.ec.view(
                 traces=self.ec.calibration["axis"][None, :],