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diff tool_dependencies.xml @ 4:80b22b31633f

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Updated for MetaPhlAn v1.7 and tool_dependencies added for auto install
author Jim Johnson <jj@umn.edu>
date Thu, 11 Oct 2012 12:01:20 -0500
parents
children 73f082e9fa2d
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Thu Oct 11 12:01:20 2012 -0500
@@ -0,0 +1,27 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="metaphlan" version="1.7.0">
+        <install version="1.0">
+            <actions>
+                <action type="shell_command">hg clone http://bitbucket.org/nsegata/metaphlan</action>
+                <action type="move_directory_files">
+                    <source_directory>.</source_directory>
+                    <destination_directory>$INSTALL_DIR</destination_directory>
+                </action>
+                <action type="set_environment">
+                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable>
+                </action>
+                <action type="set_environment">
+                    <environment_variable name="METAPHLAN_PATH" action="set_to">$INSTALL_DIR</environment_variable>
+                </action>
+
+            </actions>
+        </install>
+        <readme>
+These links provide information for the metaphlan package:
+http://huttenhower.sph.harvard.edu/metaphlan
+https://groups.google.com/forum/#!forum/metaphlan-users
+        </readme>
+    </package>
+</tool_dependency>
+