changeset 26:4ec4d48c1cb1 draft

Uploaded

--- a/README	Wed Dec 19 17:17:22 2012 -0500
+++ b/README	Thu Dec 20 17:49:25 2012 -0500
@@ -1,5 +1,7 @@
 Homer wrapper for Galaxy
 
+The homer tools will need to be accessible from command line
+
 Code repo: https://bitbucket.org/gvl/homer
 
 =========================================:

--- a/annotatePeaks.xml	Wed Dec 19 17:17:22 2012 -0500
+++ b/annotatePeaks.xml	Thu Dec 20 17:49:25 2012 -0500
@@ -1,4 +1,4 @@
-<tool id="homer_annotatePeaks" name="homer_annotatePeaks" version="0.0.4">
+<tool id="homer_annotatePeaks" name="homer_annotatePeaks" version="0.0.5">
     <requirements>
         <requirement type="package" version="4.1">homer</requirement>
     </requirements>

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies-disabled.xml	Thu Dec 20 17:49:25 2012 -0500
@@ -0,0 +1,24 @@
+<?xml version="1.0"?>
+<tool_dependency>
+  <package name="homer" version="4.1">
+    <install version="4.1">
+      <actions>
+        <action type="download_by_url">http://biowhat.ucsd.edu/homer/configureHomer.pl</action>
+        <!--<action type="shell_command">perl ./configureHomer.pl -install</action>-->
+        <!--<action type="shell_command">perl ./configureHomer.pl -install hg19</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/bin</environment_variable>
+        </action>
+      </actions>
+    </install>
+    <readme>
+      I'm sorry but this does not work
+      
+    </readme>
+  </package>
+</tool_dependency>
+