# HG changeset patch
# User lecorguille
# Date 1511966840 18000
# Node ID dcb9041cb9ea909745e1780e3ddf6a7298855544
# Parent  de0d85537ee38d0ad6eb42c482f2a3dd3a80af8c
planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 4897a06ef248e2e74e57a496dd68adbda3c828f1

diff -r de0d85537ee3 -r dcb9041cb9ea README.rst
--- a/README.rst	Fri Apr 07 07:37:05 2017 -0400
+++ b/README.rst	Wed Nov 29 09:47:20 2017 -0500
@@ -2,6 +2,10 @@
 Changelog/News
 --------------
 
+**Version 2.1.1 - 29/11/2017**
+
+- BUGFIX: To avoid issues with accented letter in the parentFile tag of the mzXML files, we changed a hidden mechanim to LC_ALL=C
+
 **Version 2.1.0 - 07/02/2017**
 
 - IMPROVEMENT: change the management of the peaklist ids. The main ids remain the same as xcms generated. The export setiings now only add custom names in the variableMetadata tab (namecustom)
diff -r de0d85537ee3 -r dcb9041cb9ea abims_xcms_fillPeaks.xml
--- a/abims_xcms_fillPeaks.xml	Fri Apr 07 07:37:05 2017 -0400
+++ b/abims_xcms_fillPeaks.xml	Wed Nov 29 09:47:20 2017 -0500
@@ -1,4 +1,4 @@
-<tool id="abims_xcms_fillPeaks" name="xcms.fillPeaks" version="2.1.0">
+<tool id="abims_xcms_fillPeaks" name="xcms.fillPeaks" version="2.1.1">
 
     <description>Integrate a sample's signal in regions where peak groups are not represented to create new peaks in missing areas</description>
 
@@ -226,11 +226,11 @@
 
 xset.variableMetadata.tsv : tabular format
 
-    | Table containing information about ions; can be used as one input of **Quality_Metrics** or **Generic_filter* modules.
+    | Table containing information about ions; can be used as one input of **Quality_Metrics** or **Generic_filter** modules.
 
 xset.dataMatrix.tsv : tabular format
 
-    | Table containing ions' intensities; can be used as one input of **Quality_Metrics** or **Generic_filter* modules.
+    | Table containing ions' intensities; can be used as one input of **Quality_Metrics** or **Generic_filter** modules.
 
 ------
 
@@ -268,6 +268,10 @@
 Changelog/News
 --------------
 
+**Version 2.1.1 - 29/11/2017**
+
+- BUGFIX: To avoid issues with accented letter in the parentFile tag of the mzXML files, we changed a hidden mechanim to LC_ALL=C
+
 **Version 2.1.0 - 07/02/2017**
 
 - IMPROVEMENT: change the management of the peaklist ids. The main ids remain the same as xcms generated. The export setiings now only add custom names in the variableMetadata tab (namecustom)
diff -r de0d85537ee3 -r dcb9041cb9ea macros.xml
--- a/macros.xml	Fri Apr 07 07:37:05 2017 -0400
+++ b/macros.xml	Wed Nov 29 09:47:20 2017 -0500
@@ -19,7 +19,7 @@
     </xml>
 
     <token name="@COMMAND_XCMS_SCRIPT@">
-        LANG=C Rscript $__tool_directory__/xcms.r
+        LC_ALL=C Rscript $__tool_directory__/xcms.r
     </token>
 
     <token name="@COMMAND_LOG_EXIT@">