diff hicSumMatrices.xml @ 0:c4ee66c35eb6 draft

planemo upload for repository https://github.com/maxplanck-ie/HiCExplorer/tree/master/galaxy/wrapper/ commit 2f347b0756d720114f037ed1ff9ba4836e1b3b04

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/hicSumMatrices.xml	Thu Mar 30 03:09:22 2017 -0400
@@ -0,0 +1,44 @@
+<tool id="hicexplorer_hicsummatrices" name="@BINARY@" version="@WRAPPER_VERSION@.0">
+    <description>combines Hi-C matrices of the same size</description>
+    <macros>
+        <token name="@BINARY@">hicSumMatrices</token>
+        <import>macros.xml</import>
+    </macros>
+    <expand macro="requirements" />
+    <command>
+<![CDATA[
+        #for $counter, $m in enumerate($matrices):
+            ln -s '$m' ${counter}.npz.h5 &&
+        #end for
+
+       #set $m = '" "'.join([ '%s.npz.h5' % $counter for $counter, $matrix in enumerate($matrices) ])
+        hicSumMatrices
+            --matrices "$m"
+            --outFileName ./out.npz.h5
+
+]]>
+    </command>
+    <inputs>
+
+        <param argument="--matrices" type="data" format="h5" multiple="True"
+            label="Matrices to combine" help="Needs to have the same shape"/>
+
+    </inputs>
+    <outputs>
+        <data name="outFileName" from_work_dir="out.npz.h5" format="h5"/>
+    </outputs>
+    <tests>
+        <test>
+            <param name="matrices" value="hicCorrectMatrix_result1.npz.h5,hicCorrectMatrix_result1.npz.h5"/>
+            <output name="outFileName" file="hicSumMatrices_result1.npz.h5" ftype="h5" compare="sim_size" delta="70000"/>
+        </test>
+    </tests>
+    <help><![CDATA[
+
+**What it does**
+
+Combines Hi-C matrices of the same size.
+
+]]></help>
+    <expand macro="citations" />
+</tool>