# HG changeset patch
# User greg
# Date 1509032470 14400
# Node ID 7801f23bc5d934566d546ff7809d5a098149056d
# Parent  33915a72ae4ea4d98051a47d32f7be3d693f1b6e
Uploaded

diff -r 33915a72ae4e -r 7801f23bc5d9 assembly_post_processor.xml
--- a/assembly_post_processor.xml	Thu Oct 26 11:39:10 2017 -0400
+++ b/assembly_post_processor.xml	Thu Oct 26 11:41:10 2017 -0400
@@ -34,17 +34,17 @@
     --min_length $options_type.min_length
 #end if
 --num_threads \${GALAXY_SLOTS:-4}
-&& mv $output_dir/transcripts.cds '$output_cds'
-&& mv $output_dir/transcripts.pep '$output_pep'
-&& mv $output_dir/transcripts.cleaned.cds '$output_cleaned_cds'
-&& mv $output_dir/transcripts.cleaned.pep '$output_cleaned_pep'
+&& cp $output_dir/transcripts.cds '$output_cds'
+&& cp $output_dir/transcripts.pep '$output_pep'
+&& cp $output_dir/transcripts.cleaned.cds '$output_cleaned_cds'
+&& cp $output_dir/transcripts.cleaned.pep '$output_cleaned_pep'
 #if str($options_type.options_type_selector) == 'advanced':
     #if str($target_gene_family_assembly_cond.target_gene_family_assembly) == 'yes':
-        && mv $output_dir/targeted_gene_family_assemblies.stats '$output_targeted_gene_families_stats'
+        && cp $output_dir/targeted_gene_family_assemblies.stats '$output_targeted_gene_families_stats'
     #end if
     #if str($options_type.dereplicate) == 'yes':
-        && mv $output_dir/transcripts.cleaned.nr.cds '$output_cleaned_nr_cds'
-        && mv $output_dir/transcripts.cleaned.nr.pep '$output_cleaned_nr_pep'
+        && cp $output_dir/transcripts.cleaned.nr.cds '$output_cleaned_nr_cds'
+        && cp $output_dir/transcripts.cleaned.nr.pep '$output_cleaned_nr_pep'
     #end if
 #end if
     ]]></command>