Mercurial > repos > jjohnson > snpeff_with_dep

diff tool_dependencies.xml @ 3:458d28b65750

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Correct name for tool_dependencies.xml
author Jim Johnson <jj@umn.edu>
date Fri, 14 Sep 2012 07:26:01 -0500
parents tool_dependency.xml@5248f48fa4ee
children ceaa79a5ee16
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Fri Sep 14 07:26:01 2012 -0500
@@ -0,0 +1,21 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <set_environment version="1.0">
+        <environment_variable name="JAVA_JAR_PATH" action="set_to">$INSTALL_DIR/dist</environment_variable>
+    </set_environment>
+    <package name="snpEff" version="3.0f">
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url">http://sourceforge.net/projects/snpeff/files/snpEff_latest_core.zip/download</action>
+                <action type="shell_command">mkdir -p $INSTALL_DIR/dist/</action>
+                <action type="shell_command">pwd</action>
+                <action type="shell_command">ls</action>
+                <action type="shell_command">cp -rp *  $INSTALL_DIR/dist/</action>
+            </actions>
+        </install>
+        <readme>
+        </readme>
+    </package>
+
+</tool_dependency>
+