changeset 1:6ef5f164d057 draft

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 820d990f9217706e693b8a2f1da91e13c09cb0fb
author galaxyp
date Tue, 18 Apr 2017 16:05:08 -0400
parents 048af24c0e2b
children aaf987159140
files FeatureFinderSuperHirn.xml readme.md
diffstat 2 files changed, 8 insertions(+), 10 deletions(-) [+]
line wrap: on
line diff
--- a/FeatureFinderSuperHirn.xml	Wed Mar 01 12:23:05 2017 -0500
+++ b/FeatureFinderSuperHirn.xml	Tue Apr 18 16:05:08 2017 -0400
@@ -75,7 +75,12 @@
   -algorithm:ms1:mz_tolerance $param_algorithm_ms1_mz_tolerance
 #end if
 #if $param_algorithm_ms1_feature_merger_active:
-  -algorithm:ms1_feature_merger:active $param_algorithm_ms1_feature_merger_active
+  -algorithm:ms1_feature_merger:active
+  #if " " in str($param_algorithm_ms1_feature_merger_active):
+    "$param_algorithm_ms1_feature_merger_active"
+  #else
+    $param_algorithm_ms1_feature_merger_active
+  #end if
 #end if
 #if $param_algorithm_ms1_feature_merger_tr_resolution:
   -algorithm:ms1_feature_merger:tr_resolution $param_algorithm_ms1_feature_merger_tr_resolution
--- a/readme.md	Wed Mar 01 12:23:05 2017 -0500
+++ b/readme.md	Tue Apr 18 16:05:08 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.: