# HG changeset patch
# User sanbi-uwc
# Date 1457191742 18000
# Node ID 68b7023c6a2ffe40836fab80a325b13d2080f953
# Parent  810d5013fdc250d7ac9c03f1ce1b59464079b68e
planemo upload for repository https://github.com/zipho/data_manager_novocraft_index_builder commit 41c23255d958406b015574dd15b07d44175a2c1b

diff -r 810d5013fdc2 -r 68b7023c6a2f data_manager/novocraft_index_builder.py
--- a/data_manager/novocraft_index_builder.py	Sat Mar 05 10:20:27 2016 -0500
+++ b/data_manager/novocraft_index_builder.py	Sat Mar 05 10:29:02 2016 -0500
@@ -54,7 +54,7 @@
     except CalledProcessError:
         print("Error building RNA STAR index", file=sys.stderr)
 
-    data_table_entry = dict( value=sequence_id, dbkey=dbkey, name=sequence_name, path=target_directory )
+    data_table_entry = dict( value=sequence_id, dbkey=dbkey, name=sequence_name, path=os.path.join(target_directory, index_filename) )
     _add_data_table_entry( data_manager_dict, data_table_name, data_table_entry )
     return ( index_filename )
 
diff -r 810d5013fdc2 -r 68b7023c6a2f data_manager_conf.xml
--- a/data_manager_conf.xml	Sat Mar 05 10:20:27 2016 -0500
+++ b/data_manager_conf.xml	Sat Mar 05 10:29:02 2016 -0500
@@ -7,8 +7,8 @@
                 <column name="dbkey" />
                 <column name="name" />
                 <column name="path" output_ref="out_file">
-                    <!--<move type="file">-->
-                    <move type="directory" relative_symlinks="True">
+                    <move type="file">
+                        <!--<move type="directory" relative_symlinks="True"> -->
                         <!-- no need to set source, gets taken from out_dir.extra_files_path -->
                          <source>${path}</source> <!-- File name within the extra files path -->
                         <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">${dbkey}/novocraft_index/${value}</target>