--- a/data_manager/data_manager_fetch_tx2gene.xml	Wed Oct 10 11:44:17 2018 -0400
+++ b/data_manager/data_manager_fetch_tx2gene.xml	Fri Oct 19 07:36:02 2018 -0400
@@ -1,5 +1,10 @@
 <tool id="data_manager_fetch_tx2gene" name="Create entries in tx2gene data table" version="0.0.1" tool_type="manage_data">
     <description>fetching</description>
+    <requirements>
+        <requirement type="package" version="1.26.4">bioconductor-genomicfeatures</requirement>
+        <requirement type="package">r-getopt</requirement>
+    </requirements>
+
     <command><![CDATA[
        python "$__tool_directory__"/data_manager_fetch_tx2gene.py "${out_file}"
        --type $file_type
@@ -14,9 +19,10 @@
         <param type="text" name="sequence_id" value="" label="ID for sequence" />
  
         <param name="file_type" type="select" label="Select input type: GFF/GTF file(features will be extracted to create tx2gene table) or transcript to gene table file(tab separated)">
-                <option value="gff_gtf">GFF/GTF file</option>
+                <option value="gtf">GTF file</option>
+                <option value="gff3">GFF3 file</option>
                 <option value="tx2gene">tx2gene</option>
-            </param>
+        </param>
 	<conditional name="reference_source">
 	    <param name="reference_source_selector" type="select" label="Choose the source for the reference genome">
 		<option value="url">URL</option>