diff abims_xcms_group.xml @ 31:f248fd3b89d6 draft

planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 49203f8a5271fa5e6bb889e907df71ebf7757309

--- a/abims_xcms_group.xml	Mon Mar 05 04:16:52 2018 -0500
+++ b/abims_xcms_group.xml	Thu Mar 08 05:53:40 2018 -0500
@@ -41,7 +41,7 @@
    ]]></command>
 
     <inputs>
-        <param name="image" type="data" format="rdata.xcms.raw,rdata.xcms.group,rdata.xcms.retcor,rdata" label="xset RData file" help="output file from another function xcms (xcmsSet, retcor etc.)" />
+        <param name="image" type="data" format="rdata.xcms.raw,rdata.xcms.group,rdata.xcms.retcor,rdata" label="@INPUT_IMAGE_LABEL@" help="@INPUT_IMAGE_HELP@ from: findChromPeaks, groupChromPeaks or adjustRtime" />
         <conditional name="methods">
             <param name="method" type="select" label="Method to use for grouping" help="See the help section below">
                 <option value="PeakDensity" selected="true">PeakDensity - peak grouping based on time dimension peak densities</option>
@@ -402,14 +402,23 @@
 
 Changelog/News
 --------------
-**Version 3.0.0.0 - 14/02/2018**
+
+**Version 3.0.0.0 - 08/03/2018**
+
+- UPGRADE: upgrade the xcms version from 1.46.0 to 3.0.0. So refactoring of a lot of underlying codes and methods. Some parameters may have been renamed.
 
-- UPGRADE: upgrade the xcms version from 1.46.0 to 3.0.0. So refactoring of a lot of underlining codes and methods
+- NEW: a bunch of new options: PeakDensity.minSamples), MzClust.minSamples)
+
+- NEW: a new density plot
+
+- IMPROVEMENT: the advanced options are now in sections. It will allow you to access to all the parameters and to know their default values.
+
 
 **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: Add an option to export the peak list at this step without have to wait camara.annotate
@@ -418,10 +427,12 @@
 
 - BUGFIX: the default value of "density" -> "Maximum number of groups to identify in a single m/z slice" which was of 5 have been changed to fix with the XMCS default values to 50
 
+
 **Version 2.0.6 - 06/07/2016**
 
 - UPGRADE: upgrate the xcms version from 1.44.0 to 1.46.0
 
+
 **Version 2.0.5 - 04/04/2016**
 
 - TEST: refactoring to pass planemo test using conda dependencies