# HG changeset patch
# User bgruening
# Date 1383439471 14400
# Node ID bd5da1454a9b60d6de2b60154047b4cfa586e086
# Parent  f7b208c7a3a1ca5e4ed65f4e952cef292ce80529
Uploaded

diff -r f7b208c7a3a1 -r bd5da1454a9b tool_dependencies.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Sat Nov 02 20:44:31 2013 -0400
@@ -0,0 +1,33 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="perl" version="5.18.1">
+        <repository changeset_revision="091a97f8c585" name="package_perl_5_18" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
+    </package>
+    <package name="bioperl" version="1.6.922">
+        <install version="1.0">
+            <actions>
+                <!-- install perl -->
+                <!--<action type="download_by_url">http://search.cpan.org/CPAN/authors/id/C/CJ/CJFIELDS/BioPerl-1.6.922.tar.gz</action>-->
+                <!-- populate the environment variables from the dependend repos -->
+                <action type="set_environment_for_install">
+                    <repository changeset_revision="091a97f8c585" name="package_perl_5_18" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
+                        <package name="perl" version="5.18.1" />
+                    </repository>
+                </action>
+
+                <action type="shell_command">cpanm --local-lib=$INSTALL_DIR XML::Parser</action>
+                <action type="shell_command">cpanm --local-lib=$INSTALL_DIR Bundle::BioPerl</action>
+
+
+                <action type="set_environment">
+                    <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
+                    <environment_variable action="prepend_to" name="PERL5LIB">$INSTALL_DIR/lib/perl5</environment_variable>
+                    <environment_variable action="set_to" name="PERL_ROOT_DIR">$INSTALL_DIR/lib</environment_variable>
+                </action>
+            </actions>
+        </install>
+        <readme>
+            Bundle::BioPerl
+        </readme>
+    </package>
+</tool_dependency>