# HG changeset patch
# User fubar
# Date 1371172490 14400
# Node ID b5bcb6c514b964d65ee41bb7a2b868d799f8cc89
# Parent  90ed6ffc654426f81ab3074dcebfc29fb4b1183e
Uploaded

diff -r 90ed6ffc6544 -r b5bcb6c514b9 htseq_bams_to_count_matrix/tool_dependencies.xml
--- a/htseq_bams_to_count_matrix/tool_dependencies.xml	Thu Jun 13 20:53:49 2013 -0400
+++ b/htseq_bams_to_count_matrix/tool_dependencies.xml	Thu Jun 13 21:14:50 2013 -0400
@@ -1,13 +1,13 @@
 <?xml version="1.0"?>
 <tool_dependency>
     <package name="numpy" version="1.7.1">
-        <repository changeset_revision="af9633757cf0" name="package_numpy_1_7" owner="blankenberg" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
+        <repository name="package_numpy_1_7" owner="blankenberg" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
     </package>
     <package name="freetype" version="2.4.11">
-        <repository changeset_revision="4e54e357ac25" name="package_freetype_2_4" owner="bgruening" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu/" />
+        <repository name="package_freetype_2_4" owner="bgruening" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu/" />
     </package>
     <package name="matplotlib" version="1.2.1">
-        <repository changeset_revision="db5e6a215790" name="package_matplotlib_lite" owner="fubar" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu/" />
+        <repository name="package_matplotlib_lite" owner="fubar" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu/" />
     </package>
     <package name="htseq" version="0.5.4p3">
         <install version="1.0">
@@ -16,15 +16,15 @@
                 <action type="make_directory">$INSTALL_DIR/lib/python</action> <!-- Not sure why these must be made apriori, but install fails otherwise -->
                 <action type="make_directory">$INSTALL_DIR/lib64/python</action> <!-- Not sure why these must be made apriori, but install fails otherwise -->
                 <action type="set_environment_for_install">
-                        <package name="numpy" toolshed="http://testtoolshed.g2.bx.psu.edu" version="1.7.1">
-                            <repository name="package_numpy_1_7" owner="blankenberg" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
-                        </package>
-                        <package name="freetype" toolshed="http://testtoolshed.g2.bx.psu.edu" version="2.4.11">
-                            <repository name="package_freetype_2_4" owner="bgruening" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu/" />
-                        </package>
-                        <package name="matplotlib" toolshed="http://testtoolshed.g2.bx.psu.edu" version="1.2.1">
-                            <repository name="package_matplotlib_lite" owner="fubar" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu/" />
-                        </package>
+                        <repository name="package_numpy_1_7" owner="blankenberg" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" >
+                            <package name="numpy" version="1.7.1"/>
+                        </repository>
+                        <repository name="package_freetype_2_4" owner="bgruening" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu/">
+                            <package name="freetype" version="2.4.11" />
+                        </repository>
+                        <repository name="package_matplotlib_lite" owner="fubar" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu/" />
+                            <package name="matplotlib" version="1.2.1" />
+                        </repository>
                 </action>
                 <action type="shell_command">export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python:$INSTALL_DIR/lib64/python &amp;&amp; python setup.py install --home $INSTALL_DIR --install-scripts $INSTALL_DIR/bin</action>
                 <action type="set_environment">