# HG changeset patch
# User bebatut
# Date 1487772963 18000
# Node ID e8206e14e88987c1b888b3582275c6182010fa0b
# Parent  c941148c75c78d848177cec8ea40e487e21fd5e9
Uploaded

diff -r c941148c75c7 -r e8206e14e889 metaphlan2.xml
--- a/metaphlan2.xml	Wed Feb 22 03:49:35 2017 -0500
+++ b/metaphlan2.xml	Wed Feb 22 09:16:03 2017 -0500
@@ -45,9 +45,9 @@
             #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
-                #set $metadata = `ls $paths[$db_choice]/*.pkl`
-                --bowtie2db $metadata[:-4]
-                --mpa_pkl '$metadata'
+                metadata=`ls $paths[$db_choice]/*.pkl`
+                --bowtie2db `echo $metadata | sed 's/\(.*\)\..*/\1/'`
+                --mpa_pkl \$metadata
             #else
                 --bowtie2db 'ref_db/ref_db'
                 --mpa_pkl 'ref_db/metadata.pkl'
diff -r c941148c75c7 -r e8206e14e889 repository_dependencies.xml
--- a/repository_dependencies.xml	Wed Feb 22 03:49:35 2017 -0500
+++ b/repository_dependencies.xml	Wed Feb 22 09:16:03 2017 -0500
@@ -1,4 +1,4 @@
 <?xml version="1.0"?>
 <repositories description="This requires the MetaPhlAn2 data manager definition to install all required databases.">
-    <repository changeset_revision="332cb1b3b349" name="data_manager_humann2_database_downloader" owner="bebatut" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+    <repository changeset_revision="dbfade666d42" name="data_manager_metaphlan2_database_downloader" owner="bebatut" toolshed="https://testtoolshed.g2.bx.psu.edu" />
 </repositories>