Mercurial > repos > devteam > package_lastz_1_02_00

diff tool_dependencies.xml @ 0:1d4a5e764543 draft default tip

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Uploaded tool dependency definition.
author devteam
date Fri, 21 Feb 2014 14:23:50 -0500
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Fri Feb 21 14:23:50 2014 -0500
@@ -0,0 +1,41 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="lastz" version="1.02.00">
+        <install version="1.0">
+            <actions_group>
+                <actions architecture="x86_64" os="linux">
+                    <action type="download_by_url">http://depot.galaxyproject.org/package/linux/x86_64/lastz/lastz-1.02.00-Linux-x86_64.tgz</action>
+                    <action type="move_directory_files">
+                        <source_directory>.</source_directory>
+                        <destination_directory>$INSTALL_DIR/bin</destination_directory>
+                    </action>
+                </actions>
+                <actions architecture="x86_64" os="darwin">
+                    <action type="download_by_url">http://depot.galaxyproject.org/package/darwin/x86_64/lastz/lastz-1.02.00-Darwin-x86_64.tgz</action>
+                    <action type="move_directory_files">
+                        <source_directory>.</source_directory>
+                        <destination_directory>$INSTALL_DIR/bin</destination_directory>
+                    </action>
+                </actions>
+                <actions>
+                    <action type="download_by_url" target_filename="lastz-distrib-1.02.00.tar.gz">http://www.bx.psu.edu/miller_lab/dist/lastz-1.02.00.tar.gz</action>
+                    <action type="shell_command">make</action>
+                    <action type="move_file">
+                        <source>src/lastz</source>
+                        <destination>$INSTALL_DIR/bin</destination>
+                    </action>
+                    <action type="move_file">
+                        <source>src/lastz_D</source>
+                        <destination>$INSTALL_DIR/bin</destination>
+                    </action>
+                </actions>
+                <action type="set_environment">
+                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
+                </action>
+            </actions_group>
+        </install>
+        <readme>
+LASTZ is a program for aligning DNA sequences, a pairwise aligner. Originally designed to handle sequences the size of human chromosomes and from different species, it is also useful for sequences produced by NGS sequencing technologies such as Roche 454.
+        </readme>
+    </package>
+</tool_dependency>
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