Mercurial > repos > greg > assembly_post_processor

changeset 87:e8d7d4a1672f draft

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Uploaded
author greg
date Wed, 25 Oct 2017 09:13:54 -0400
parents 126430ebebf7
children a9ca872be416
files assembly_post_processor.xml
diffstat 1 files changed, 2 insertions(+), 0 deletions(-) [+]
line wrap: on
line diff
--- a/assembly_post_processor.xml	Wed Oct 25 08:39:31 2017 -0400
+++ b/assembly_post_processor.xml	Wed Oct 25 09:13:54 2017 -0400
@@ -32,6 +32,7 @@
     --min_length $options_type.min_length
 #end if
 --num_threads \${GALAXY_SLOTS:-4}
+2>&1
 && mv $output_dir/transcripts.cds '$output_cds'
 && mv $output_dir/transcripts.pep '$output_pep'
 && mv $output_dir/transcripts.cleaned.cds '$output_cleaned_cds'
@@ -148,6 +149,7 @@
             <param name="scaffold" value="22Gv1.1"/>
             <param name="method" value="orthomcl"/>
             <param name="dereplicate" value="yes"/>
+            <param name="min_coverage" value="0.3"/>
             <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"/>