diff hicPlotDistVsCounts.xml @ 2:9b664f43a90e draft

planemo upload for repository https://github.com/maxplanck-ie/HiCExplorer/tree/master/galaxy/wrapper/ commit 4d61b6bf2fed275ab38c226d0c4390b095a38251

--- a/hicPlotDistVsCounts.xml	Mon Apr 03 07:07:41 2017 -0400
+++ b/hicPlotDistVsCounts.xml	Thu Nov 02 11:11:34 2017 -0400
@@ -28,7 +28,7 @@
             $perchr
             #set chroms = " ".join([ "'%s'" % $var.chromosomeExclude for $var in $chromosomeExclude ])
             #if $chromosomeExclude:
-                --chromosomeExclude $chroms
+                --chromosomeExclude '$chroms'
             #end if
 ]]>
     </command>
@@ -44,7 +44,9 @@
             help="Width and height of the plot (in inches). Default is 6*number of cols, 4 * number of rows. The maximum number of rows is 4. Example --plotsize 6 5." />
         <repeat name="chromosomeExclude" min="0" title="Chromosomes to exclude"
             help="This is useful for example to exclude the Y chromosome.">
-            <param argument="--chromosomeExclude" type="text" value="" />
+            <param argument="--chromosomeExclude" type="text" value="" >
+                <validator type="empty_field" />
+            </param>
         </repeat>
 
     </inputs>
@@ -70,14 +72,14 @@
             <repeat name="chromosomeExclude">
                 <param name="chromosomeExclude" value="chr3LHet"/>
             </repeat>
-            <output name="plotFile" file="hicPlotDistVsCounts_result2.png" ftype="png" compare="sim_size" delta="15000"/>
+            <output name="plotFile" file="hicPlotDistVsCounts_result2.png" ftype="png" compare="sim_size" delta="40000"/>
         </test>
     </tests>
     <help><![CDATA[
 
 **What it does**
 
-This program makes a distance vs. hi-c counts plots. It can use several matrix files to compare
+This program makes a distance vs. Hi-C counts plots. It can use several matrix files to compare
 them. If the `--perchr` option is given, each chromosome is plotted independently. In the case
 of more than one matrix, multiple plots are created, one per chromosome. When plotting multiple
 matrices denser matrices are scaled down to match the sum of the smaller matrix.