diff tool_dependencies.xml @ 3:f5075dee9d6b draft

planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/augustus commit cf04d83d615ff09c4458982282d422fbef7d83ac

--- a/tool_dependencies.xml	Wed May 06 14:31:02 2015 -0400
+++ b/tool_dependencies.xml	Fri May 22 04:55:25 2015 -0400
@@ -1,33 +1,6 @@
 <?xml version="1.0"?>
 <tool_dependency>
-    <package name="augustus" version="2.7">
-        <install version="1.0">
-            <actions>
-                <action type="download_by_url">http://bioinf.uni-greifswald.de/augustus/binaries/old/augustus.2.7.tar.gz</action>
-                <action type="shell_command">make</action>
-                <action type="move_directory_files">
-                    <source_directory>bin</source_directory>
-                    <destination_directory>$INSTALL_DIR/bin</destination_directory>
-                </action>
-                <action type="move_directory_files">
-                    <source_directory>scripts</source_directory>
-                    <destination_directory>$INSTALL_DIR/scripts</destination_directory>
-                </action>
-                <action type="move_directory_files">
-                    <source_directory>config</source_directory>
-                    <destination_directory>$INSTALL_DIR/config</destination_directory>
-                </action>
-                <action type="set_environment">
-                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/scripts</environment_variable>
-                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
-                    <environment_variable name="AUGUSTUS_CONFIG_PATH" action="set_to">$INSTALL_DIR/config</environment_variable>
-                </action>
-            </actions>
-        </install>
-        <readme>AUGUSTUS is a gene prediction program for eukaryotes written by Mario Stanke and Oliver Keller.
-It can be used as an ab initio program, which means it bases its prediction purely on the
-sequence. AUGUSTUS may also incorporate hints on the gene structure coming from extrinsic sources
-such as EST, MS/MS, protein alignments and synthenic genomic alignments.
-http://augustus.gobics.de/binaries/README.TXT</readme>
+    <package name="augustus" version="3.1">
+        <repository changeset_revision="cc0bd4986b48" name="package_augustus_3_1" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
     </package>
 </tool_dependency>