# HG changeset patch
# User iuc
# Date 1407760061 14400
# Node ID 554cce8d37fb1454c2a9a587a60531fe48cfeb3b

Imported from capsule None

diff -r 000000000000 -r 554cce8d37fb tool_dependencies.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Mon Aug 11 08:27:41 2014 -0400
@@ -0,0 +1,21 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="vcftools" version="0.1.12b">
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url">http://downloads.sourceforge.net/project/vcftools/vcftools_0.1.12b.tar.gz</action>
+                <action type="shell_command">make</action>
+                <action type="shell_command">PREFIX="$INSTALL_DIR/vcftools" make install</action>
+                <!-- For some reason, the vcftools binary does not get installed using 'make install' above, so include manually. -->
+                <action type="shell_command">cp bin/vcftools $INSTALL_DIR/vcftools/bin</action>
+                <action type="set_environment">
+                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/vcftools/bin</environment_variable>
+                </action>
+            </actions>
+        </install>
+        <readme>
+            A set of tools written in Perl and C++ for working with VCF files, such as those generated by the 1000 Genomes Project.
+            http://vcftools.sourceforge.net/
+        </readme>
+    </package>
+</tool_dependency>