From a628ce681348855e7c2941a4bce8f38cc6d6394b Mon Sep 17 00:00:00 2001
From: Greg Von Kuster <greg@bx.psu.edu>
Date: Wed, 26 Mar 2008 15:01:55 +0000
Subject: [PATCH] Fix for find_diag_hits, should now properly load and pass
 functional test.

---
 tools/taxonomy/find_diag_hits.xml | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/tools/taxonomy/find_diag_hits.xml b/tools/taxonomy/find_diag_hits.xml
index fb76369a532..6e350597c8a 100644
--- a/tools/taxonomy/find_diag_hits.xml
+++ b/tools/taxonomy/find_diag_hits.xml
@@ -3,7 +3,7 @@
     <command interpreter="python">find_diag_hits.py $input1 $id_col $rank_list $out_format $out_file1</command>
     <inputs>
         <param format="taxonomy" name="input1" type="data" label="Find diagnostic hits in"/>
-        <param name="id_col" type="data_column" data_ref="input" numerical="False" label="Select column with sequence id" />
+        <param name="id_col" type="data_column" data_ref="input1" numerical="False" label="Select column with sequence id" />
         <param name="rank_list" type="select" display="checkboxes" multiple="true" label="select taxonomic ranks">
             <option value="superkingdom">Superkingdom</option>
             <option value="kingdom">Kingdom</option>
@@ -37,11 +37,11 @@
     </outputs>
       <tests>
     <test>
-      <param name="input1" value="taxonomyGI.dat" type="taxonomy"/>
+      <param name="input1" value="taxonomyGI.dat" ftype="taxonomy"/>
       <param name="id_col" value="1" />
       <param name="rank_list" value="order,genus" />
       <param name="out_format" value="counts" />
-      <output name="out_file1" file="find_diag_hits.dat"/>
+      <output name="out_file1" file="find_diag_hits.dat" ftype="tabular"/>
     </test> 
   </tests>