Mercurial > repos > bebatut > metaphlan2

changeset 34:476d18d599c9 draft

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Uploaded
author bebatut
date Wed, 22 Feb 2017 09:19:47 -0500
parents e8206e14e889
children c312685a4b26
files metaphlan2.xml
diffstat 1 files changed, 2 insertions(+), 3 deletions(-) [+]
line wrap: on
line diff
--- a/metaphlan2.xml	Wed Feb 22 09:16:03 2017 -0500
+++ b/metaphlan2.xml	Wed Feb 22 09:19:47 2017 -0500
@@ -45,9 +45,8 @@
             #if $db.db_selector == "cached"
                 #set $paths = dict([(_[0], _[3]) for _ in $db.cached_db.input.options.tool_data_table.data])
                 #set $db_choice = $db.cached_db.value
-                metadata=`ls $paths[$db_choice]/*.pkl`
-                --bowtie2db `echo $metadata | sed 's/\(.*\)\..*/\1/'`
-                --mpa_pkl \$metadata
+                --bowtie2db `ls $paths[$db_choice]/*.pkl | sed 's/\(.*\)\..*/\1/'`
+                --mpa_pkl `ls $paths[$db_choice]/*.pkl`
             #else
                 --bowtie2db 'ref_db/ref_db'
                 --mpa_pkl 'ref_db/metadata.pkl'