# HG changeset patch
# User devteam
# Date 1432068141 14400
# Node ID f093ba52debe646b5932144e28f10e526ffc66e4
# Parent  60d9479c58d606d164a0a78766279570083c148b
planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken_filter/ commit cb1743eafd4ca98be0148d557770ef8635cc8d4c-dirty

diff -r 60d9479c58d6 -r f093ba52debe kraken-filter.xml
--- a/kraken-filter.xml	Wed Apr 22 13:03:54 2015 -0400
+++ b/kraken-filter.xml	Tue May 19 16:42:21 2015 -0400
@@ -7,6 +7,7 @@
     </macros>
     <command>
         <![CDATA[
+        @SET_DATABASE_PATH@ &&
         kraken-filter @INPUT_DATABASE@ --threshold $threshold "${input}" > "$filtered_output"
         ]]>
     </command>
diff -r 60d9479c58d6 -r f093ba52debe macros.xml
--- a/macros.xml	Wed Apr 22 13:03:54 2015 -0400
+++ b/macros.xml	Tue May 19 16:42:21 2015 -0400
@@ -25,5 +25,6 @@
             <citation type="doi">10.1186/gb-2014-15-3-r46</citation>
         </citations>
     </xml>
-    <token name="@INPUT_DATABASE@">--db ${kraken_database.fields.path}/${kraken_database.fields.name}</token>
+    <token name="@INPUT_DATABASE@">--db ${kraken_database.fields.name}</token>
+    <token name="@SET_DATABASE_PATH@">export KRAKEN_DB_PATH="${kraken_database.fields.path}"</token>
 </macros>
\ No newline at end of file
diff -r 60d9479c58d6 -r f093ba52debe tool_dependencies.xml
--- a/tool_dependencies.xml	Wed Apr 22 13:03:54 2015 -0400
+++ b/tool_dependencies.xml	Tue May 19 16:42:21 2015 -0400
@@ -1,6 +1,6 @@
 <?xml version="1.0"?>
 <tool_dependency>
   <package name="kraken" version="0.10.5">
-      <repository changeset_revision="c949a8bd92ec" name="package_kraken_0_10_5" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+      <repository changeset_revision="e79fee8f87fa" name="package_kraken_0_10_5" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" />
     </package>
 </tool_dependency>