Mercurial > repos > yating-l > data_manager_fetch_reference_data
changeset 11:85e817cdf4bd draft
planemo upload
| author | yating-l |
|---|---|
| date | Wed, 03 May 2017 18:35:17 -0400 |
| parents | f2e535e1b45c |
| children | 2e3c8be803ee |
| files | data_manager/fetch_reference_data.py data_manager_conf.xml |
| diffstat | 2 files changed, 3 insertions(+), 3 deletions(-) [+] |
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--- a/data_manager/fetch_reference_data.py Wed May 03 18:24:19 2017 -0400 +++ b/data_manager/fetch_reference_data.py Wed May 03 18:35:17 2017 -0400 @@ -50,13 +50,13 @@ glimmerhmm_trained_dir = os.path.join(downloadpath, 'GlimmerHMM', 'trained_dir', sequence_id) glimmerhmm_trained_target_dir = os.path.join(target_directory, sequence_id) shutil.copytree(glimmerhmm_trained_dir, glimmerhmm_trained_target_dir) - data_table_entry = dict(value=sequence_id, name=sequence_name, path=glimmerhmm_trained_target_dir.strip('/')) + data_table_entry = dict(value=sequence_id, name=sequence_name, path=glimmerhmm_trained_target_dir) _add_data_table_entry(data_manager_dict, data_table_entry) cleanup_before_exit('tmp') def _add_data_table_entry(data_manager_dict, data_table_entry): - data_manager_dict['data_tables'] = data_manager_dict.get( 'data_tables', {} ) + data_manager_dict['data_tables'] = data_manager_dict.get('data_tables', {}) data_manager_dict['data_tables']['glimmer_hmm_trained_dir'] = data_manager_dict['data_tables'].get('glimmer_hmm_trained_dir', []) data_manager_dict['data_tables']['glimmer_hmm_trained_dir'].append(data_table_entry) return data_manager_dict
--- a/data_manager_conf.xml Wed May 03 18:24:19 2017 -0400 +++ b/data_manager_conf.xml Wed May 03 18:35:17 2017 -0400 @@ -6,7 +6,7 @@ <column name="value" /> <column name="name" /> <column name="path" output_ref="out_file"> - <move type="file"> + <move type="directory"> <source>${path}</source> <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">${name}/${path}</target> </move>