--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/red.xml	Wed Sep 14 12:02:55 2022 +0000
@@ -0,0 +1,40 @@
+<tool id="red" name="Red" profile="20.01" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@">
+    <description>repeat masking</description>
+    <macros>
+        <token name="@TOOL_VERSION@">2018.09.10</token>
+        <token name="@VERSION_SUFFIX@">0</token>
+    </macros>
+    <requirements>
+        <requirement type="package" version="@TOOL_VERSION@">red</requirement>
+    </requirements>
+    <command detect_errors="exit_code"><![CDATA[
+mkdir input output &&
+
+ln -s '${input}' input/genome.fa &&
+
+Red
+-gnm input/
+-msk output/
+-cor \${GALAXY_SLOTS:-1}
+    ]]></command>
+    <inputs>
+        <param label="Genome sequence to mask" name="input" type="data" format="fasta" />
+    </inputs>
+    <outputs>
+        <data format="fasta" name="masked" from_work_dir="output/genome.msk" />
+    </outputs>
+    <tests>
+        <test>
+            <param name="input" value="small.fa" />
+            <output name="masked" file="small.msk" />
+        </test>
+    </tests>
+    <help><![CDATA[
+This is Red (REpeat Detector) designed and developed by Hani Zakaria Girgis, PhD.
+
+An intelligent, rapid, accurate tool for detecting repeats de-novo on the genomic scale.
+    ]]></help>
+    <citations>
+        <citation type="doi">10.1186/s12859-015-0654-5</citation>
+    </citations>
+</tool>