Mercurial > repos > nilesh > rnaseqc

changeset 8:aad08b24baff default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
switched to git
author nilesh
date Mon, 15 Jul 2013 14:09:29 -0500
parents 6baaaaa1f858
children
files tool_dependencies.xml
diffstat 1 files changed, 4 insertions(+), 3 deletions(-) [+]
line wrap: on
line diff
--- a/tool_dependencies.xml	Mon Jul 15 14:00:46 2013 -0500
+++ b/tool_dependencies.xml	Mon Jul 15 14:09:29 2013 -0500
@@ -11,10 +11,11 @@
                         <package name="zlib" version="1.2.8" />
                    </repository>
                 </action>
-    			<action type="download_by_url">http://sourceforge.net/projects/bio-bwa/files/bwa-0.7.5a.tar.bz2</action>
+    			<action type="shell_command">git clone https://github.com/lh3/bwa.git</action>
+    			<action type="shell_command">cd ./bwa &amp;&amp; make LIBS="-L$ZLIB_PATH -lm -lz -lpthread"</action>
     			<action type="move_file">
-                    <source>.</source>
-                    <destination>$INSTALL_DIR</destination>
+                    <source>bwa/bwa</source>
+                    <destination>$INSTALL_DIR/bin</destination>
                 </action>
     			<action type="set_environment">
     				<environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>