# HG changeset patch
# User muon-spectroscopy-computational-project
# Date 1711117413 0
# Node ID 5b993aff09e37177755cc1919ca622d502aa25e4
# Parent  59d0d15a40ef80149182cf763deeb30808648dfd
planemo upload for repository https://github.com/MaterialsGalaxy/larch-tools/tree/main/larch_plot commit d4c7e090dc5c94395d7e1574845ac2c76f2e4f5f

diff -r 59d0d15a40ef -r 5b993aff09e3 common.py
--- a/common.py	Mon Mar 04 11:43:46 2024 +0000
+++ b/common.py	Fri Mar 22 14:23:33 2024 +0000
@@ -73,7 +73,11 @@
     )
     for key, parameters_key, default in keys:
         extract_attribute(
-            merged_settings, key, bkg_parameters, parameters_key, default
+            merged_settings=merged_settings,
+            key=key,
+            parameters_group=bkg_parameters,
+            parameters_key=parameters_key,
+            default=default,
         )
 
     if settings:
@@ -116,7 +120,11 @@
     )
     for key, parameters_key, default in keys:
         extract_attribute(
-            merged_settings, key, fft_parameters, parameters_key, default
+            merged_settings=merged_settings,
+            key=key,
+            parameters_group=fft_parameters,
+            parameters_key=parameters_key,
+            default=default,
         )
 
     if settings:
diff -r 59d0d15a40ef -r 5b993aff09e3 larch_plot.py
--- a/larch_plot.py	Mon Mar 04 11:43:46 2024 +0000
+++ b/larch_plot.py	Fri Mar 22 14:23:33 2024 +0000
@@ -10,7 +10,7 @@
 
 
 AXIS_LABELS = {
-    "norm": r"x$\mu$(E), normalised",
+    "flat": r"x$\mu$(E), flattened",
     "dmude": r"d(x$\mu$(E))/dE, normalised",
     "chir_mag": r"|$\chi$(r)|",
     "energy": "Energy (eV)",
diff -r 59d0d15a40ef -r 5b993aff09e3 larch_plot.xml
--- a/larch_plot.xml	Mon Mar 04 11:43:46 2024 +0000
+++ b/larch_plot.xml	Fri Mar 22 14:23:33 2024 +0000
@@ -4,7 +4,7 @@
         <!-- version of underlying tool (PEP 440) -->
         <token name="@TOOL_VERSION@">0.9.74</token>
         <!-- version of this tool wrapper (integer) -->
-        <token name="@WRAPPER_VERSION@">0</token>
+        <token name="@WRAPPER_VERSION@">1</token>
         <!-- citation should be updated with every underlying tool version -->
         <!-- typical fields to update are version, month, year, and doi -->
         <token name="@TOOL_CITATION@">10.1088/1742-6596/430/1/012007</token>
@@ -33,11 +33,11 @@
         <repeat name="plots" title="Plots" min="1" default="1" help="Each additional entry will create another output plot">
             <conditional name="variable">
                 <param name="variable" type="select" display="radio" label="Variable" help="Variable to plot on the y axis">
-                    <option value="norm" selected="true">Normalised xμ</option>
+                    <option value="flat" selected="true">Flattened xμ</option>
                     <option value="dmude">Derivative of xμ</option>
                     <option value="chir_mag">Magnitude of χ(r)</option>
                 </param>
-                <when value="norm">
+                <when value="flat">
                     <expand macro="plot_limits_energy"/>
                     <param name="y_limit_min" type="float" label="Minimum xμ(E)" optional="true" help="If set, plot will be limited to this value on the y axis."/>
                     <param name="y_limit_max" type="float" label="Maximum xμ(E)" optional="true" help="If set, plot will be limited to this value on the y axis."/>
@@ -65,7 +65,7 @@
         <!-- 1: plot types -->
         <test expect_num_outputs="1">
             <param name="dat_files" value="test.prj"/>
-            <param name="variable" value="norm"/>
+            <param name="variable" value="flat"/>
             <param name="variable" value="dmude"/>
             <param name="variable" value="chir_mag"/>
             <output_collection name="plot_collection" type="list" count="3"/>
@@ -73,7 +73,7 @@
         <!-- 2: plot limits -->
         <test expect_num_outputs="1">
             <param name="dat_files" value="test.prj,merged.prj"/>
-            <param name="variable" value="norm"/>
+            <param name="variable" value="flat"/>
             <param name="x_limit_min" value="7000"/>
             <param name="x_limit_max" value="7200"/>
             <param name="y_limit_min" value="0"/>