# HG changeset patch
# User greg
# Date 1507817185 14400
# Node ID 8378d126347ac45a36f90a09b93acb03dbd42eb9
# Parent  1a216a9837c7248c862ebc647d6c3227e5e18c8a
Uploaded

diff -r 1a216a9837c7 -r 8378d126347a assembly_post_processor.xml
--- a/assembly_post_processor.xml	Thu Oct 12 09:52:45 2017 -0400
+++ b/assembly_post_processor.xml	Thu Oct 12 10:06:25 2017 -0400
@@ -90,7 +90,7 @@
     </inputs>
     <outputs>
         <collection name="output_targeted_gene_families" type="list" label="Targeted gene families: ${tool.name} on ${on_string}">
-            <discover_datasets pattern="__name__" directory="assemblyPostProcessing_dir/targeted_gene_families" format="fasta" />
+            <discover_datasets pattern="__name__" directory="assemblyPostProcessing_dir/targeted_gene_family_assemblies" format="fasta" />
             <filter>options_type['options_type_selector'] == 'advanced' and options_type['target_gene_family_assembly_cond']['target_gene_family_assembly'] == 'yes'</filter>
         </collection>
         <data name="output_pep" format="fasta" label="transcripts.pep: ${tool.name} on ${on_string}"/>
@@ -135,9 +135,11 @@
             <param name="scaffold" value="22Gv1.1"/>
             <param name="method" value="orthomcl"/>
             <param name="dereplicate" value="yes"/>
-            <!--
-            <output name="output_pttgf" file="output.pttgf" ftype="pttgf"/>
-            -->
+            <output_collection name="output_targeted_gene_families" type="list">
+                <element name="752.faa" file="752.faa" ftype="fasta"/>
+                <element name="752.fasta" file="752.fasta" ftype="fasta"/>
+                <element name="752.fna" file="752.fna" ftype="fasta"/>
+            </output_collection>
             <output name="output_cds" file="transcripts_tgf.cds" ftype="fasta"/>
             <output name="output_cleaned_cds" file="transcripts.cleaned_tgf.cds" ftype="fasta"/>
             <output name="output_cleaned_nr_cds" file="transcripts_tgf.cleaned.nr.cds" ftype="fasta"/>