# HG changeset patch
# User galaxyp
# Date 1565870903 14400
# Node ID b95d333b4a3fe04f8e21965d2c26638846e9e5cb
# Parent  081720f095a9da9242df258b979fde7d75f56741
"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 74b5aa29e49deaaebe19ce2355a70d4f570f4951"

diff -r 081720f095a9 -r b95d333b4a3f init.py
--- a/init.py	Wed Aug 07 10:49:44 2019 -0400
+++ b/init.py	Thu Aug 15 08:08:23 2019 -0400
@@ -45,8 +45,7 @@
     standard_mods = []
     label_mods = []
     for m in mods:
-        if (m.findtext('type') == 'Standard'
-            or m.findtext('type') == 'AaSubstitution'):
+        if (m.findtext('type') == 'Standard' or m.findtext('type') == 'AaSubstitution'):
             standard_mods.append(m.get('title'))
         elif m.findtext('type') == 'Label':
             label_mods.append(m.get('title'))
diff -r 081720f095a9 -r b95d333b4a3f maxquant_mqpar.xml
--- a/maxquant_mqpar.xml	Wed Aug 07 10:49:44 2019 -0400
+++ b/maxquant_mqpar.xml	Thu Aug 15 08:08:23 2019 -0400
@@ -175,9 +175,8 @@
 
 - Thermo raw file or mzXML file
     - The datatype has to be 'thermo.raw' or 'mzXML'. Make sure to specify the correct datatype either during upload to Galaxy or afterwards (edit attributes --> datatypes)
-- Optional files:
-    - mqpar.xml: 
-        - MaxQuant parameters will be taken from the provided mqpar.xml file. This parameter file MUST be created using the same version of MaxQuant as is used by this tool. The correct version of MaxQuant can be obtained via the bioconda channel for the conda package manager.
+- mqpar.xml: 
+    - MaxQuant parameters will be taken from the provided mqpar.xml file. This parameter file MUST be created using the same version of MaxQuant as is used by this tool. The correct version of MaxQuant can be obtained via the bioconda channel for the conda package manager.
 
 **Output files**