# HG changeset patch
# User biomonika <biomonika@psu.edu>
# Date 1408991337 14400
# Node ID 66d7b41f74b13e0b8a5c0d8542eff763ddb12024
# Parent  480491c2ce1cb2e2ca749842d8ab0ea7a39e5f02
:wq

diff -r 480491c2ce1c -r 66d7b41f74b1 tool_dependencies.xml
--- a/tool_dependencies.xml	Mon Aug 25 13:29:42 2014 -0400
+++ b/tool_dependencies.xml	Mon Aug 25 14:28:57 2014 -0400
@@ -30,31 +30,4 @@
             </actions>
         </install>
         <readme>Compiling samtools with fPIC in order to create bam.h and compiled libbam.a files</readme>
-    </package>
-
-    <package name="perl" version="5.18.1">
-        <repository name="package_perl_5_18" owner="iuc" prior_installation_required="True" />
-    </package>
-    
-    <package name="bioperl" version="1.6.922">
-        <install version="1.0">
-            <actions>
-                <action type="setup_perl_environment">
-                    <repository changeset_revision="28865aa39fbb" name="package_perl_5_18" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
-                        <package name="perl" version="5.18.1" />
-                    </repository>
-                   <!-- allow downloading and installing an Perl package from cpan.org-->
-                   <package>Bio::DB::Sam</package>
-                   <package>http://search.cpan.org/CPAN/authors/id/L/LD/LDS/Bio-SamTools-1.39.tar.gz</package>
-                   <package>Bio::DB::Fasta</package>
-                   <package>http://search.cpan.org/CPAN/authors/id/C/CJ/CJFIELDS/BioPerl-1.6.901.tar.gz</package>
-                   <package>File::Slurp</package>
-                   <package>http://search.cpan.org/CPAN/authors/id/D/DR/DROLSKY/File-Slurp-9999.13.tar.gz</package>
-                </action>
-            </actions>
-        </install>
-        <readme>
-            Installing dependencies. Bio::DB::Sam needs to know location of bam.h and compiled libbam.a files, therefore environmental variable SAMTOOLS needs to be correctly set.
-        </readme>
-    </package>
-</tool_dependency>
+    </package>
\ No newline at end of file