Mercurial > repos > greg > gene_family_aligner

changeset 63:77fcf796be0e draft

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Uploaded
author greg
date Wed, 25 Oct 2017 11:27:00 -0400
parents 763a50c4f9fc
children 8d71c1dff476
files gene_family_aligner.xml
diffstat 1 files changed, 8 insertions(+), 6 deletions(-) [+]
line wrap: on
line diff
--- a/gene_family_aligner.xml	Thu Oct 19 08:54:15 2017 -0400
+++ b/gene_family_aligner.xml	Wed Oct 25 11:27:00 2017 -0400
@@ -47,6 +47,7 @@
         #end if
     #end if
 #end if
+&>proc.log
     ]]></command>
     <inputs>
         <param name="input" format="fasta" type="data_collection" collection_type="list" label="Integrated orthogroup fasta files" />
@@ -134,14 +135,15 @@
         <test>
             <param name="input">
                 <collection type="list">
-                <element name="3722.faa" value="3722.faa"/>
-                <element name="3722.fna" value="3722.fna"/>
-                <element name="38889.faa" value="38889.faa"/>
-                <element name="38889.fna" value="38889.fna"/>
-                <element name="39614.faa" value="39614.faa"/>
-                <element name="39614.fna" value="39614.fna"/>
+                    <element name="3722.faa" value="3722.faa"/>
+                    <element name="3722.fna" value="3722.fna"/>
+                    <element name="38889.faa" value="38889.faa"/>
+                    <element name="38889.fna" value="38889.fna"/>
+                    <element name="39614.faa" value="39614.faa"/>
+                    <element name="39614.fna" value="39614.fna"/>
                 </collection>
             </param>
+            <param name="codon_alignments" value="yes"/>
             <output_collection name="primary_faa" type="list">
                 <element name="3722.faa.aln" file="3722.faa.aln" ftype="fasta"/>
                 <element name="38889.faa.aln" file="38889.faa.aln" ftype="fasta"/>