changeset 0:fe02e5e93877

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/README	Wed May 08 03:24:26 2013 -0400
@@ -0,0 +1,34 @@
+This package installs the Trans Proteomic Pipeline Commandline Tools
+
+Installing this package should proceed automatically however for the purpose 
+of troubleshooting these are the steps it will perform
+
+1. Download an install script from dropbox
+2. Install several perl packages locally (inside the install directory) 
+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:
+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
+
+	# 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

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Wed May 08 03:24:26 2013 -0400
@@ -0,0 +1,28 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="galaxy_protk" version="1.2.0">
+         <repository toolshed="http://testtoolshed.g2.bx.psu.edu" name="galaxy_protk" owner="iracooke" changeset_revision="8bb76a3347c9" 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 $INSTALL_DIR 1.2.0</action>
+                <action type="move_file">
+                    <source>install_tpp.sh</source>
+                    <destination>$INSTALL_DIR</destination>
+                </action>
+                <action type="set_environment">
+                    <environment_variable name="PROTK_TPP_ROOT" action="set_to">$INSTALL_DIR</environment_variable>
+                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
+                </action>                
+            </actions>
+        </install>
+        <readme>
+            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>