# HG changeset patch
# User greg
# Date 1491930267 14400
# Node ID 4ce0f6af1a5e0ac0a991df4405ee9127522858c4
# Parent  e5523659847a260eb1a6735a6bcf73d360038d9f
Uploaded

diff -r e5523659847a -r 4ce0f6af1a5e gene_family_phylogeny_builder.xml
--- a/gene_family_phylogeny_builder.xml	Tue Apr 11 11:07:15 2017 -0400
+++ b/gene_family_phylogeny_builder.xml	Tue Apr 11 13:04:27 2017 -0400
@@ -8,7 +8,6 @@
     <command>
         <![CDATA[
             #set input_format = $input_format_cond.input_format
-            #set tree_inference_cond = $phylogenetic_trees_cond.tree_inference_cond
             #set tree_inference = $tree_inference_cond.tree_inference
             #if str($tree_inference) == 'raxml':
                 #set rooting_order_file_cond = $tree_inference_cond.rooting_order_file_cond
@@ -71,34 +70,34 @@
             </param>
             <when value="ptalign">
                 <param name="input_ptalign" format="ptalign" type="data" label="Aligned gene family sequences">
-                    <!-- <validator type="empty_files_path" /> -->
+                    <validator type="empty_files_path" />
                 </param>
             </when>
             <when value="ptalignca">
                 <param name="input_ptalignca" format="ptalignca" type="data" label="Aligned gene family sequences with codon alignments">
-                    <!-- <validator type="empty_files_path" /> -->
+                    <validator type="empty_files_path" />
                 </param>
                 <expand macro="param_sequence_type" />
             </when>
             <when value="ptalignfiltered">
                 <param name="input_ptalignfiltered" format="ptalignfiltered" type="data" label="Filtered aligned gene family sequences">
-                    <!-- <validator type="empty_files_path" /> -->
+                    <validator type="empty_files_path" />
                 </param>
             </when>
             <when value="ptalignfilteredca">
                 <param name="input_ptalignfilteredca" format="ptalignfilteredca" type="data" label="Filtered aligned gene family sequences with codon alignments">
-                    <!-- <validator type="empty_files_path" /> -->
+                    <validator type="empty_files_path" />
                 </param>
                 <expand macro="param_sequence_type" />
             </when>
             <when value="ptaligntrimmed">
                 <param name="input_ptaligntrimmed" format="ptaligntrimmed" type="data" label="Trimmed aligned gene family sequences">
-                    <!-- <validator type="empty_files_path" /> -->
+                    <validator type="empty_files_path" />
                 </param>
             </when>
             <when value="ptaligntrimmedca">
                 <param name="input_ptaligntrimmedca" format="ptaligntrimmedca" type="data" label="Trimmed aligned gene family sequences with codon alignments">
-                    <!-- <validator type="empty_files_path" /> -->
+                    <validator type="empty_files_path" />
                 </param>
                 <expand macro="param_sequence_type" />
             </when>