Mercurial > repos > fubar > package_rnastar_2_3_1z

changeset 0:0fa7feb9b4a8 draft default tip

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author fubar
date Wed, 05 Mar 2014 18:51:11 -0500
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files tool_dependencies.xml
diffstat 1 files changed, 27 insertions(+), 0 deletions(-) [+]
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Wed Mar 05 18:51:11 2014 -0500
@@ -0,0 +1,27 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="rnastar" version="2.3.1z">
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url">ftp://ftp2.cshl.edu/gingeraslab/tracks/STARrelease/Alpha/STAR_2.3.1z.tgz</action>
+                <action type="shell_command">make</action>
+                <action type="make_directory">$INSTALL_DIR</action>
+                <action type="make_directory">$INSTALL_DIR/bin</action>
+                <action type="move_file">
+                    <source>STAR</source>
+                    <destination>$INSTALL_DIR/bin</destination>
+                </action>
+                <action type="set_environment">
+                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
+                </action>
+                <action type="set_environment">
+                    <environment_variable action="set_to" name="RNA_STAR_PATH">$INSTALL_DIR/bin/STAR</environment_variable>
+                </action>
+            </actions>
+        </install>
+        <readme>
+Installs the STAR binary for rnastar - see https://code.google.com/p/rna-star/
+        </readme>
+    </package>
+</tool_dependency>
+