diff tool_dependencies.xml @ 1:2bb7c28ea68f draft

Committed version 0.2: added dependency management and a readme file, and support prokka 1.7

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Wed Sep 04 11:33:13 2013 -0400
@@ -0,0 +1,38 @@
+<?xml version="1.0"?>
+<tool_dependency>
+  <package name="prokka" version="1.7">
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url">http://www.vicbioinformatics.com/prokka-1.7.tar.gz</action>
+                <!-- Copying the whole bin, binaries, doc and db folders -->
+		<action type="make_directory">$INSTALL_DIR/bin</action>
+		<action type="make_directory">$INSTALL_DIR/binaries</action>
+		<action type="make_directory">$INSTALL_DIR/db</action>
+		<action type="make_directory">$INSTALL_DIR/doc</action>
+		<action type="move_directory_files">
+		  <source_directory>bin</source_directory>
+		  <destination_directory>$INSTALL_DIR/bin</destination_directory>
+		</action>
+                <action type="move_directory_files">
+		  <source_directory>binaries</source_directory>
+		  <destination_directory>$INSTALL_DIR/binaries</destination_directory>
+		</action>
+                <action type="move_directory_files">
+		  <source_directory>db</source_directory>
+		  <destination_directory>$INSTALL_DIR/db</destination_directory>
+		</action>
+                <action type="move_directory_files">
+		  <source_directory>doc</source_directory>
+		  <destination_directory>$INSTALL_DIR/doc</destination_directory>
+		</action>
+                <action type="set_environment">
+		  <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
+                </action>
+            </actions>
+        </install>
+    
+    <readme>
+This installs prokka 1.7
+Note: this is about a 2.0 GB download due to included custom databases.</readme>
+  </package>
+</tool_dependency>