# HG changeset patch
# User iracooke
# Date 1383717159 18000
# Node ID bfcfbba3403e7e050965aff78e8c47a541bd1dca
# Parent  c4c50fbac9d96e3199c0647239fea6d4056490ab
Uploaded

diff -r c4c50fbac9d9 -r bfcfbba3403e tool_dependencies.xml
--- a/tool_dependencies.xml	Tue Nov 05 19:20:50 2013 -0500
+++ b/tool_dependencies.xml	Wed Nov 06 00:52:39 2013 -0500
@@ -1,7 +1,13 @@
 <?xml version="1.0"?>
 <tool_dependency>
     <package name="libgd" version="2.1.0">
-        <repository changeset_revision="b17bbb1a41da" name="package_libgd_2_1" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
+        <repository changeset_revision="016ad1de8f18" name="package_libgd_2_1" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
+    </package>
+    <package name="libpng" version="1.2.5">
+        <repository changeset_revision="a80a3062f066" name="package_libpng_1_2" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
+    </package>
+    <package name="bzlib" version="1.0.6">
+        <repository changeset_revision="04e1967b1722" name="package_bzlib_1_0" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
     </package>
     <package name="perl" version="5.18.1">
         <repository changeset_revision="ab58b9f990c5" name="package_perl_5_18" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
@@ -14,9 +20,15 @@
             <actions>
                 <!-- populate the environment variables from the dependend repos -->
                 <action type="set_environment_for_install">
-                    <repository changeset_revision="b17bbb1a41da" name="package_libgd_2_1" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
+                    <repository changeset_revision="016ad1de8f18" name="package_libgd_2_1" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
                         <package name="libgd" version="2.1.0" />
                     </repository>
+                    <repository changeset_revision="a80a3062f066" name="package_libpng_1_2" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
+                        <package name="libpng" version="1.2.5" />
+                    </repository>
+                    <repository changeset_revision="04e1967b1722" name="package_bzlib_1_0" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
+                        <package name="bzlib" version="1.0.6" />
+                    </repository>
                     <repository changeset_revision="8fc96166cddd" name="package_expat_2_1" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
                         <package name="expat" version="2.1.0" />
                     </repository>
@@ -34,7 +46,11 @@
                 <action type="shell_command">echo 'TPP_WEB=/tpp/' &gt;&gt; Makefile.config.incl</action>
                 <action type="shell_command">echo 'CGI_USER_DIR=$INSTALL_DIR/cgi-bin/' &gt;&gt; Makefile.config.incl</action>
 
-                <action type="shell_command">echo "TPP_ROOT=$INSTALL_DIR/\nTPP_WEB=/tpp/\nXSLT_PROC=/usr/bin/xsltproc\nCGI_USERS_DIR=$INSTALL_DIR/cgi-bin/" &gt; "TPP-$tpp_version/trans_proteomic_pipeline/src/Makefile.config.incl"</action>
+                <action type="shell_command">echo "TPP_ROOT=$INSTALL_DIR/\nTPP_WEB=/tpp/\nXSLT_PROC=/usr/bin/xsltproc\nCGI_USERS_DIR=$INSTALL_DIR/cgi-bin/" &gt; "Makefile.config.incl"</action>
+
+
+                <action type="shell_command">sed -i -e 's/qw(.*) /(&amp;) /' ../CGI/show_nspbin.pl</action>
+                <action type="shell_command">sed -i -e 's/qw(.*) /(&amp;) /' ../perl/exporTPP.pl</action>
 
                 <action type="shell_command">eval $(perl -I$PERL_LOCALLIB_DIR/lib/perl5 -Mlocal::lib=$PERL_LOCALLIB_DIR); make; make install</action>