Mercurial > repos > jjohnson > snpeff_with_dep

diff tool_dependencies.xml @ 24:f22f28cd881e

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Update for snpEff v3.2
author Jim Johnson <jj@umn.edu>
date Tue, 07 May 2013 14:58:15 -0500
parents 077c84a53846
children 7c1c337fb21c
line wrap: on
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--- a/tool_dependencies.xml	Thu Jan 17 14:25:58 2013 -0600
+++ b/tool_dependencies.xml	Tue May 07 14:58:15 2013 -0500
@@ -1,23 +1,7 @@
 <?xml version="1.0"?>
 <tool_dependency>
-    <package name="snpEff" version="3.1">
-        <install version="1.0">
-            <actions>
-                <action type="download_by_url">http://sourceforge.net/projects/snpeff/files/snpEff_v3_1_core.zip</action>
-                <action type="move_directory_files">
-                    <source_directory>.</source_directory>
-                    <destination_directory>$INSTALL_DIR</destination_directory>
-                </action>
-                <action type="set_environment">
-                    <environment_variable name="JAVA_JAR_PATH" action="set_to">$INSTALL_DIR</environment_variable>
-                </action>
-                <action type="set_environment">
-                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/scripts</environment_variable>
-                </action>
-            </actions>
-        </install>
-        <readme>
-        </readme>
+    <package name="snpEff" version="3.2">
+        <repository toolshed="http://localhost:19009" name="snpeff_3_2" owner="jimmy" changeset_revision="b793dbd0644e" />
     </package>
 </tool_dependency>