--- a/zinbra.xml	Thu Nov 12 12:03:47 2015 +0300
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,43 +0,0 @@
-<tool id="zinbra" name="Zinbra" version="0.0.1">
-    <description>ChIP-Seq analysis</description>
-    <requirements>
-        <requirement type="package" version="0.0.1">integration_jar</requirement>
-    </requirements>
-    <stdio>
-        <!-- Wrapper ensures anything other than zero is an error -->
-        <exit_code range="1:"/>
-        <exit_code range=":-1"/>
-    </stdio>
-    <command interpreter="python">
-        #if $action.selection == "analyze"
-            zinbra_wrapper.py "${genome}" "${bin}" "${fdr}" analyze "${bed}"
-        #else
-            zinbra_wrapper.py "${genome}" "${bin}" "${fdr}" compare "${bed1}" "${bed2}"
-        #end if
-    </command>
-    <inputs>
-        <param name="genome" type="data" format="fasta" label="Genome build" description="Genome build reference"/>
-        <param name="bin" size="5" type="integer" value="200" label="Bin size"/>
-        <param name="fdr" size="5" type="float" value="0.0001" label="FDR"/>
-        <conditional name="action">
-            <param name="selection" type="select" label="Action">
-                <option value="analyze">Compute enrichment of ChIP-Seq</option>
-                <option value="compare">Compare different ChIP-Seqs</option>
-            </param>
-            <when value="analyze">
-                <param name="bed" type="data" format="bed" label="ChIP-Seq bed" description="BED Aligned reads to process"/>
-            </when>
-            <when value="compare">
-                <param name="bed1" type="data" format="bed" label="ChIP-Seq bed1" description="BED Aligned reads 1 to process"/>
-                <param name="bed2" type="data" format="bed" label="ChIP-Seq bed2" description="BED Aligned reads 2 to process"/>
-            </when>
-        </conditional>
-    </inputs>
-    <outputs>
-        <data name="result" format="bed" label="result.bed"/>
-    </outputs>
-    <help>
-Zinbra is a tool for analyzing and comparing ChIP-Seq data using Zero Inflated Negative Binomial Restricted Algorithm.
-https://github.com/JetBrains-Research/zinbra
-    </help>
-</tool>