Mercurial > repos > sanbi-uwc > data_manager_novocraft_index_builder
changeset 10:68b7023c6a2f draft
planemo upload for repository https://github.com/zipho/data_manager_novocraft_index_builder commit 41c23255d958406b015574dd15b07d44175a2c1b
| author | sanbi-uwc |
|---|---|
| date | Sat, 05 Mar 2016 10:29:02 -0500 |
| parents | 810d5013fdc2 |
| children | a9b725202132 |
| files | data_manager/novocraft_index_builder.py data_manager_conf.xml |
| diffstat | 2 files changed, 3 insertions(+), 3 deletions(-) [+] |
line wrap: on
line diff
--- 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 )
--- 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>