# HG changeset patch
# User galaxyp
# Date 1492544292 14400
# Node ID 3be9073b721e92387b6b2d62b926c999155773aa
# Parent  cf30ca99bd20c4777e2bcdf406a5d56ca205c927
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 820d990f9217706e693b8a2f1da91e13c09cb0fb

diff -r cf30ca99bd20 -r 3be9073b721e ITRAQAnalyzer.xml
--- a/ITRAQAnalyzer.xml	Sat Apr 08 08:29:33 2017 -0400
+++ b/ITRAQAnalyzer.xml	Tue Apr 18 15:38:12 2017 -0400
@@ -13,7 +13,12 @@
   <command>ITRAQAnalyzer
 
 #if $param_type:
-  -type $param_type
+  -type
+  #if " " in str($param_type):
+    "$param_type"
+  #else
+    $param_type
+  #end if
 #end if
 #if $param_in:
   -in $param_in
@@ -31,7 +36,12 @@
   -id_pool     "$param_id_pool"
 #end if
 #if $param_algorithm_Extraction_select_activation:
-  -algorithm:Extraction:select_activation '$param_algorithm_Extraction_select_activation'
+  -algorithm:Extraction:select_activation
+  #if " " in str($param_algorithm_Extraction_select_activation):
+    "$param_algorithm_Extraction_select_activation"
+  #else
+    $param_algorithm_Extraction_select_activation
+  #end if
 #end if
 #if $param_algorithm_Extraction_reporter_mass_shift:
   -algorithm:Extraction:reporter_mass_shift $param_algorithm_Extraction_reporter_mass_shift
diff -r cf30ca99bd20 -r 3be9073b721e readme.md
--- a/readme.md	Sat Apr 08 08:29:33 2017 -0400
+++ b/readme.md	Tue Apr 18 15:38:12 2017 -0400
@@ -39,10 +39,10 @@
  * clone or install CTD2Galaxy
 
     ```bash
-    git clone https://github.com/blankclemens/CTD2Galaxy.git
+    git clone https://github.com/WorkflowConversion/CTD2Galaxy.git
     ```
     
- * If you have CTDopts and CTD2Galaxy installed you are ready to generate Galaxy Tools from CTD definitions. Change the following command according to your needs, especially the `/PATH/TO` parts. 
+ * If you have CTDopts and CTD2Galaxy installed you are ready to generate Galaxy Tools from CTD definitions. Change the following command according to your needs, especially the `/PATH/TO` parts. The default files are provided in this repository.
 
     ```bash
     python generator.py \ 
@@ -102,13 +102,6 @@
     [...]
     ]]>
     ```
- * In `PeakPickerHiRes.xml`, the parameter `report_FWHM_unit` has to be put in quotation marks. Look for the following line
- 
-        -algorithm:report_FWHM_unit $param_algorithm_report_FWHM_unit
-     
-   and change it to
-   
-        -algorithm:report_FWHM_unit "$param_algorithm_report_FWHM_unit"
 
  * In `FileConverter.xml` add `auto_format="true"` to the output, e.g.: