# HG changeset patch
# User Ira Cooke <iracooke@gmail.com>
# Date 1370783826 18000
# Node ID e85a18371516c8d002303289719ca18ac449ead7
# Parent  cedd5e88434968f56a284845c8aa68c36b360e4f
Update

diff -r cedd5e884349 -r e85a18371516 README
--- a/README	Tue Mar 05 00:14:39 2013 -0500
+++ b/README	Sun Jun 09 08:17:06 2013 -0500
@@ -5,16 +5,30 @@
 
 1. Download an install script from dropbox
 2. Install several perl packages locally (inside the install directory) 
-3. Download the TPP source code from dropbox
+3. Download the TPP source code
 4. Build the TPP
 
 Intermediate files in this process are stored in ~/.protk/tmp/download and ~/.protk/tmp/build
 
 Requirements:
-This package depends on the galaxy_protk 
-Please see instructions for that package before installing
+Please see instructions for package galaxy_protk and ensure those are met
+
+In addition several system packages are required in order to build the TPP.  The lists
+below work for specific test systems. If you have a different system you may need additional packages.
+
+Ubuntu-12.04-LTS 64 Bit Server With OpenSSH preinstalled:
+	# For Building the TPP
+	subversion libbz2-dev swig expat libpng12-dev gnuplot libperl-dev libfuse-dev libcurl4-openssl-dev libxml2-dev libgd2-xpm-dev
 
-In addition the following packages are required in order to build the TPP
-subversion libbz2-dev swig expat libpng12-dev gnuplot libperl-dev build-essential
-libgd2-xpm libfuse-dev libcurl4-openssl-dev libxml2-dev libgd2-xpm-dev
+	# For Installing perl modules locally (for the TPP)
+	liblocal-lib-perl cpanminus
 
+Centos 6 Server
+	# For Building the TPP
+	libcurl-devel libcurl libxml2 libxml2-devel expat-devel gd gd-devel expat gnuplot libxslt swig
+
+	# For Perl Module Management
+	perl-local-lib
+
+	# On Centos you will need to install cpanminus manually with this command
+	curl -L http://cpanmin.us | perl - --self-upgrade
diff -r cedd5e884349 -r e85a18371516 repository_dependencies.xml
--- a/repository_dependencies.xml	Tue Mar 05 00:14:39 2013 -0500
+++ b/repository_dependencies.xml	Sun Jun 09 08:17:06 2013 -0500
@@ -4,5 +4,5 @@
 </repositories>
  -->
 <repositories description="Requires the galaxy_protk package">
-     <repository toolshed="http://toolshed.g2.bx.psu.edu" name="galaxy_protk" owner="iracooke" changeset_revision="dac478a72c1d"/>
+     <repository toolshed="http://toolshed.g2.bx.psu.edu" name="galaxy_protk" owner="iracooke" changeset_revision="c25df71f7b68"/>
 </repositories>
diff -r cedd5e884349 -r e85a18371516 tool_dependencies.xml
--- a/tool_dependencies.xml	Tue Mar 05 00:14:39 2013 -0500
+++ b/tool_dependencies.xml	Sun Jun 09 08:17:06 2013 -0500
@@ -1,10 +1,13 @@
 <?xml version="1.0"?>
 <tool_dependency>
+    <package name="galaxy_protk" version="1.2.2">
+         <repository toolshed="http://toolshed.g2.bx.psu.edu" name="galaxy_protk" owner="iracooke" changeset_revision="c25df71f7b68" prior_installation_required="True"/>
+    </package>
     <package name="trans_proteomic_pipeline" version="4.6.1">
         <install version="1.0">
             <actions>
                 <action type="download_by_url">https://dl.dropbox.com/u/226794/galaxy_protk.tar.gz</action>
-                <action type="shell_command">sh install_tpp.sh $INSTALL_DIR 1.2.0</action>
+                <action type="shell_command">sh install_tpp.sh $INSTALL_DIR 1.2.2</action>
                 <action type="move_file">
                     <source>install_tpp.sh</source>
                     <destination>$INSTALL_DIR</destination>
@@ -16,12 +19,10 @@
             </actions>
         </install>
         <readme>
-            Compiling the TPP requires g++ subversion libbz2-dev swig expat libpng12-dev gnuplot libperl-dev libgd2-dev libgd2-xpm-dev libfuse-dev libcurl4-openssl-dev 
-
             The Trans Proteomic Pipeline is a collection of proteomics tools.  For more information see http://tools.proteomecenter.org/wiki/index.php?title=Software:TPP
 
             This package installs the TPP (Trans Proteomic Pipeline) using an installation script contained in protk. It requires the galaxy_protk package to be installed before it will work.
         </readme>
     </package>
 
-</tool_dependency>
\ No newline at end of file
+</tool_dependency>