# HG changeset patch
# User greg
# Date 1480521514 18000
# Node ID d9de60b241b56b0e142a0c857c7bde493015c77d
# Parent  f180247fab16d68c69c7619b236d94bfad68f123
Uploaded

diff -r f180247fab16 -r d9de60b241b5 plant_tribes_assembly_post_processor.xml
--- a/plant_tribes_assembly_post_processor.xml	Wed Nov 30 10:43:19 2016 -0500
+++ b/plant_tribes_assembly_post_processor.xml	Wed Nov 30 10:58:34 2016 -0500
@@ -24,7 +24,7 @@
                     --scaffold "$options_type.target_gene_family_assembly_cond.scaffold"
                     --method "$options_type.target_gene_family_assembly_cond.method"
                 #end if
-                --gap_trimming $options_type.target_gene_family_assembly_cond.gap_trimming
+                --gap_trimming $options_type.gap_trimming
                 #if str($options_type.strand_specific) == 'yes':
                     --strand_specific
                 #end if
@@ -72,9 +72,9 @@
                             <option value="orthofinder">OrthoFinder</option>
                             <option value="orthomcl">OrthoMCL</option>
                         </param>
-                        <param name="gap_trimming" type="float" value="0.1" min="0" max="1.0" label="Remove gappy sites in alignments" help="0.1 removes sites with 90% gaps"/>
                     </when>
                 </conditional>
+                <param name="gap_trimming" type="float" value="0.1" min="0" max="1.0" label="Remove gappy sites in alignments" help="0.1 removes sites with 90% gaps"/>
                 <param name="strand_specific" type="select" label="De novo transcriptome assembly was performed with strand-specific library?">
                     <option value="no" selected="true">No</option>
                     <option value="yes">Yes</option>