# HG changeset patch
# User bgruening
# Date 1393349684 18000
# Node ID a3fb2752c3409e7e40078f1b53056999e62e4c07
# Parent  2ddcff5d0fa2ca208a5ef52c73037a2ae8f34143
Uploaded

diff -r 2ddcff5d0fa2 -r a3fb2752c340 tool_dependencies.xml
--- a/tool_dependencies.xml	Sun Sep 08 07:13:55 2013 -0400
+++ b/tool_dependencies.xml	Tue Feb 25 12:34:44 2014 -0500
@@ -7,9 +7,9 @@
                 <action type="make_directory">$INSTALL_DIR/lib/tRNAscan-SE/</action>
                 <action type="make_directory">$INSTALL_DIR/man/</action>
                 <!-- replacing the hardcoded pathvariables with the real ones -->
-                <action type="shell_command">cd ./tRNAscan-SE-1.3.1 &amp;&amp; sed 's%^BINDIR  = .*%BINDIR = $INSTALL_DIR/bin/%' Makefile | sed 's%^LIBDIR  = .*%LIBDIR = $INSTALL_DIR/lib/tRNAscan-SE/%' | sed 's%^MANDIR  = .*%MANDIR = $INSTALL_DIR/man%' > Makefile_new</action>
-                <action type="shell_command">cd ./tRNAscan-SE-1.3.1 &amp;&amp; rm Makefile &amp;&amp; mv Makefile_new Makefile</action>
-                <action type="shell_command">cd ./tRNAscan-SE-1.3.1 &amp;&amp; make &amp;&amp; make install</action>
+                <action type="shell_command">sed 's%^BINDIR  = .*%BINDIR = $INSTALL_DIR/bin/%' Makefile | sed 's%^LIBDIR  = .*%LIBDIR = $INSTALL_DIR/lib/tRNAscan-SE/%' | sed 's%^MANDIR  = .*%MANDIR = $INSTALL_DIR/man%' > Makefile_new</action>
+                <action type="shell_command">rm Makefile &amp;&amp; mv Makefile_new Makefile</action>
+                <action type="make_install"/>
 
                 <!-- for some reason infernal needs to be directly under the bin/ from tRNAScan -->
                 <action type="shell_command">wget ftp://selab.janelia.org/pub/software/infernal/infernal-1.0.2.tar.gz</action>