# HG changeset patch
# User sanbi-uwc
# Date 1455524518 18000
# Node ID 61084615bb577844e933de4ab3942949d42edf04
# Parent  ccb7ce1ad9b39a088628b61a865d2c317d8b5ced
planemo upload for repository https://github.com/pvanheus/data_manager_rnastar_index_builder commit ab936cfb63040f3e5d34d35c1e2b968698fd2caa

diff -r ccb7ce1ad9b3 -r 61084615bb57 data_manager/rnastar_index_builder.py
--- a/data_manager/rnastar_index_builder.py	Fri Feb 12 03:30:43 2016 -0500
+++ b/data_manager/rnastar_index_builder.py	Mon Feb 15 03:21:58 2016 -0500
@@ -62,7 +62,6 @@
 filename = args.output_filename
 
 params = load(open(filename, 'rb'))
-print(params)
 output_directory = params[ 'output_data' ][0]['extra_files_path']
 makedirs( output_directory )
 data_manager_dict = {}
diff -r ccb7ce1ad9b3 -r 61084615bb57 data_manager/rnastar_index_builder.xml
--- a/data_manager/rnastar_index_builder.xml	Fri Feb 12 03:30:43 2016 -0500
+++ b/data_manager/rnastar_index_builder.xml	Mon Feb 15 03:21:58 2016 -0500
@@ -11,15 +11,6 @@
         </param>
         <param type="text" name="sequence_name" value="" label="Name of sequence" />
         <param type="text" name="sequence_id" value="" label="ID for sequence" />
-        <!--<conditional name="advanced_options">-->
-            <!--<param name="show_advanced_options" type="boolean" label="Show advanced options?"-->
-                   <!--truevalue="yes" falsevalue="no" checked="false" />-->
-            <!--<when value="yes">-->
-                <!--<param name="chr_bin_nbits" type="integer" label="Scale of chromosome bins"-->
-                       <!--help="value is log2(chrBin), where chrBin is the size of the bins for genome storage: each chromosome will occupy an integer number of bins" default="18" />-->
-            <!--</when>-->
-            <!--<when value="no" />-->
-        <!--</conditional>-->
     </inputs>
     <outputs>
         <data name="out_file" format="data_manager_json" />
diff -r ccb7ce1ad9b3 -r 61084615bb57 data_manager_conf.xml
--- a/data_manager_conf.xml	Fri Feb 12 03:30:43 2016 -0500
+++ b/data_manager_conf.xml	Mon Feb 15 03:21:58 2016 -0500
@@ -5,7 +5,7 @@
             <output>
                 <column name="value" />
                 <column name="dbkey" />
-                <column name="path" output_ref="out_dir">
+                <column name="path" output_ref="out_file">
                     <move type="directory" relative_symlinks="True">
                         <!-- no need to set source, gets taken from out_dir.extra_files_path -->
                         <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">${dbkey}/rnastar_index/${value}</target>