# HG changeset patch
# User galaxyp
# Date 1492545360 14400
# Node ID 581bae0fad5259868a9358247b7772a926b22878
# Parent  753f9df45758e51dddc7188b8dcab5ae97b44771
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 820d990f9217706e693b8a2f1da91e13c09cb0fb

diff -r 753f9df45758 -r 581bae0fad52 TICCalculator.xml
--- a/TICCalculator.xml	Wed Mar 01 10:15:57 2017 -0500
+++ b/TICCalculator.xml	Tue Apr 18 15:56:00 2017 -0400
@@ -16,10 +16,20 @@
   -in $param_in
 #end if
 #if $param_read_method:
-  -read_method $param_read_method
+  -read_method
+  #if " " in str($param_read_method):
+    "$param_read_method"
+  #else
+    $param_read_method
+  #end if
 #end if
 #if $param_loadData:
-  -loadData $param_loadData
+  -loadData
+  #if " " in str($param_loadData):
+    "$param_loadData"
+  #else
+    $param_loadData
+  #end if
 #end if
 #if $adv_opts.adv_opts_selector=='advanced':
     #if $adv_opts.param_force:
diff -r 753f9df45758 -r 581bae0fad52 readme.md
--- a/readme.md	Wed Mar 01 10:15:57 2017 -0500
+++ b/readme.md	Tue Apr 18 15:56:00 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.: