Mercurial > repos > greg > assembly_post_processor

diff assembly_post_processor.xml @ 97:9c4afc33bc87 draft

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Uploaded
author greg
date Thu, 26 Oct 2017 13:17:49 -0400
parents 11e85af74c7e
children 96e4d7bc2f2a
line wrap: on
line diff
--- a/assembly_post_processor.xml	Thu Oct 26 12:20:04 2017 -0400
+++ b/assembly_post_processor.xml	Thu Oct 26 13:17:49 2017 -0400
@@ -41,15 +41,15 @@
 && mv $output_dir/transcripts.cleaned.pep '$output_cleaned_pep'
 #if str($options_type.options_type_selector) == 'advanced':
     #if str($target_gene_family_assembly_cond.target_gene_family_assembly) == 'yes':
-        && if [ -f $output_dir/targeted_gene_family_assemblies.stats ]; then
+        && if [ -f "$output_dir/targeted_gene_family_assemblies.stats" ]; then
             mv $output_dir/targeted_gene_family_assemblies.stats '$output_targeted_gene_families_stats'
         fi
     #end if
     #if str($options_type.dereplicate) == 'yes':
-        && if [ -f $output_dir/transcripts.cleaned.nr.cds ]; then
+        && if [ -f "$output_dir/transcripts.cleaned.nr.cds" ]; then
             mv $output_dir/transcripts.cleaned.nr.cds '$output_cleaned_nr_cds'
         fi
-        && if [ -f $output_dir/transcripts.cleaned.nr.pep ]; then
+        && if [ -f "$output_dir/transcripts.cleaned.nr.pep" ]; then
             mv $output_dir/transcripts.cleaned.nr.pep '$output_cleaned_nr_pep'
         fi
     #end if