changeset 3:0acb69966d7c draft

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/rnaz.xml	Sun Dec 22 12:32:51 2013 -0500
@@ -0,0 +1,22 @@
+<tool id="rnaz" name="RNAz" version="0.1.0">
+    <description></description>
+    <requirements>
+        <requirement type="package" version="1.0">rnaz</requirement>
+    </requirements>
+    <command>
+RNAz $inputaln $outfile
+    </command>
+    <stdio>
+        <exit_code range="1:" level="fatal" description="Error occurred. Please check Tool Standard Error" />
+        <exit_code range=":-1" level="fatal" description="Error occurred. Please check Tool Standard Error" />
+    </stdio>
+    <inputs>
+        <param format="aln" name="inputaln" type="data" label="Input Alignment File" />
+    </inputs>
+    <outputs>
+        <data name="outfile" format="txt" />
+    </outputs>
+    <help>**What it does**
+     RNAz is a program for predicting structurally conserved and thermodynamically stable RNA secondary structures in multiple sequence alignments. It can be used in genome wide screens to detect functional RNA structures, as found in noncoding RNAs and cis-acting regulatory elements of mRNAs.
+    </help>
+</tool>

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Sun Dec 22 12:32:51 2013 -0500
@@ -0,0 +1,14 @@
+<tool_dependency>
+    <package name="rnaz" version="2.1">
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url">http://www.tbi.univie.ac.at/~wash/RNAz/RNAz-2.1.tar.gz</action>
+                <action type="autoconf" />
+                <action type="set_environment">
+                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
+                </action>
+            </actions>
+        </install>
+        <readme>Compiling RNAz requires a C compiler (typically gcc)</readme>
+    </package>
+</tool_dependency>