# HG changeset patch
# User devteam
# Date 1371755889 14400
# Node ID 9fd501d0f295780e5ffef0078969bb392a0842c3

Uploaded tool dependency definition that downloads and installs EMBOSS 5.0.0 and PHYLIP 3.6b.

diff -r 000000000000 -r 9fd501d0f295 tool_dependencies.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Thu Jun 20 15:18:09 2013 -0400
@@ -0,0 +1,53 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="libx11" version="1.5.0">
+        <repository changeset_revision="90c1cbb8095a" name="package_x11_client_1_5_proto_7_0" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
+    </package>
+    <package name="emboss" version="5.0.0">
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url">ftp://emboss.open-bio.org/pub/EMBOSS/old/5.0.0/EMBOSS-5.0.0.tar.gz</action>
+                <action type="set_environment_for_install">
+                    <repository changeset_revision="90c1cbb8095a" name="package_x11_client_1_5_proto_7_0" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu">
+                        <package name="libx11" version="1.5.0" />
+                    </repository>
+                </action>
+                <action type="shell_command">
+                    if [ -z $X11_LIB_DIR ] || [ -z $X11_INCLUDE_DIR ]; then
+                        ./configure --prefix=$INSTALL_DIR
+                    else
+                        ./configure --prefix=$INSTALL_DIR --x-includes=$X11_INCLUDE_DIR --x-libraries=$X11_LIB_DIR
+                    fi
+                </action>
+                <action type="shell_command">make</action>
+                <action type="shell_command">make install</action>
+            </actions>
+            <actions>
+                <action type="download_by_url">ftp://emboss.open-bio.org/pub/EMBOSS/old/5.0.0/PHYLIP-3.6b.tar.gz</action>
+                <action type="set_environment_for_install">
+                    <repository changeset_revision="90c1cbb8095a" name="package_x11_client_1_5_proto_7_0" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu">
+                        <package name="libx11" version="1.5.0" />
+                    </repository>
+                </action>
+                <action type="shell_command">
+                    if [ -z $X11_LIB_DIR ] || [ -z $X11_INCLUDE_DIR ]; then
+                        ./configure --prefix=$INSTALL_DIR
+                    else
+                        ./configure --prefix=$INSTALL_DIR --x-includes=$X11_INCLUDE_DIR --x-libraries=$X11_LIB_DIR CFLAGS='-I$INSTALL_DIR/include'
+                    fi
+                </action>
+                <action type="shell_command">make</action>
+                <action type="shell_command">make install</action>
+            </actions>
+        </install>
+        <readme>
+These links provide information for building the Emboss package in most environments.
+
+System requirements
+http://emboss.sourceforge.net/download/#Requirements
+
+Platform-dependent notes
+http://emboss.sourceforge.net/download/#Platforms
+        </readme>
+    </package>
+</tool_dependency>