# HG changeset patch
# User galaxyp
# Date 1492546084 14400
# Node ID 79186fbde4eaf012e24f23198fcc6e1057cdd0c6
# Parent  026dbe52de09cb00b739c9ad6a97cae16114b137
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 820d990f9217706e693b8a2f1da91e13c09cb0fb

diff -r 026dbe52de09 -r 79186fbde4ea IDMapper.xml
--- a/IDMapper.xml	Wed Mar 01 12:31:09 2017 -0500
+++ b/IDMapper.xml	Tue Apr 18 16:08:04 2017 -0400
@@ -28,10 +28,20 @@
   -mz_tolerance $param_mz_tolerance
 #end if
 #if $param_mz_measure:
-  -mz_measure $param_mz_measure
+  -mz_measure
+  #if " " in str($param_mz_measure):
+    "$param_mz_measure"
+  #else
+    $param_mz_measure
+  #end if
 #end if
 #if $param_mz_reference:
-  -mz_reference $param_mz_reference
+  -mz_reference
+  #if " " in str($param_mz_reference):
+    "$param_mz_reference"
+  #else
+    $param_mz_reference
+  #end if
 #end if
 #if $param_ignore_charge:
   -ignore_charge
diff -r 026dbe52de09 -r 79186fbde4ea readme.md
--- a/readme.md	Wed Mar 01 12:31:09 2017 -0500
+++ b/readme.md	Tue Apr 18 16:08:04 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.: