diff tool_dependencies.xml @ 0:3c1664caa8e3 draft

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Sat Jul 06 09:52:23 2013 -0400
@@ -0,0 +1,43 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="cutadapt" version="1.1">
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url">http://cutadapt.googlecode.com/files/cutadapt-1.1.tar.gz</action>
+                <action type="move_directory_files">
+                    <source_directory>bin</source_directory>
+                    <destination_directory>$INSTALL_DIR/bin</destination_directory>
+                </action>
+                <action type="move_directory_files">
+                    <source_directory>cutadapt</source_directory>
+                    <destination_directory>$INSTALL_DIR/cutadapt</destination_directory>
+                </action>
+                <action type="set_environment">
+                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
+                </action>
+            </actions>
+        </install>
+        <readme>
+        </readme>
+    </package>
+    <package name="fastqc" version="0.10.1">
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url">http://www.bioinformatics.babraham.ac.uk/projects/fastqc/fastqc_v0.10.1.zip</action>
+                <action type="move_directory_files">
+                    <source_directory>../FastQC/</source_directory>
+                    <destination_directory>$INSTALL_DIR/FastQC</destination_directory>
+                </action>
+                <action type="set_environment">
+                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/FastQC</environment_variable>
+                </action>
+            </actions>
+        </install>
+        <readme>
+        FastQC needs a java Runtime Environment.
+        </readme>
+    </package>
+</tool_dependency>
+
+
+