# HG changeset patch
# User greg
# Date 1494528691 14400
# Node ID 770dd72bd12ce688d82d9effeb674a8ff440224b
# Parent  451ad91530b8a4f3edec095fe9ec59c09bef281b
Uploaded

diff -r 451ad91530b8 -r 770dd72bd12c gene_family_phylogeny_builder.xml
--- a/gene_family_phylogeny_builder.xml	Thu May 11 13:42:33 2017 -0400
+++ b/gene_family_phylogeny_builder.xml	Thu May 11 14:51:31 2017 -0400
@@ -134,21 +134,14 @@
         <param name="min_orthogroup_size" type="integer" value="4" min="0" label="Minimum orthogroup size" />
     </inputs>
     <outputs>
-        <!--
-        <data name="output_phylip" format="ptphylip" label="Gene family orthogroup phylip multiple sequence alignments on ${on_string}">
-            <filter>tree_inference_cond['tree_inference'] == 'raxml'</filter>
-        </data>
-        <data name="output_tree" format="pttree" label="Gene family phylogenetic trees on ${on_string}" />
-        -->
         <collection name="phylip" type="list">
-            <discover_datasets pattern="__name__" directory="geneFamilyPhylogenies_dir/phylip_aln" visible="true" ext="fasta" />
+            <discover_datasets pattern="__name__" directory="geneFamilyPhylogenies_dir/phylip_aln" format="phylip" />
         </collection>
         <collection name="tree" type="list">
-            <discover_datasets pattern="__name__" directory="geneFamilyPhylogenies_dir/orthogroups_tree" visible="true" ext="fasta" />
+            <discover_datasets pattern="__name__" directory="geneFamilyPhylogenies_dir/orthogroups_tree" format="txt" />
         </collection>
     </outputs>
     <tests>
-        <!-- Test framework does not currently support inputs whose associated extra_files_path contains files to be analyzed.
         <test>
         </test>
         -->