Mercurial > repos > iuc > data_manager_manual
diff data_manager/data_manager_manual.py @ 7:f0d1db0ce33c draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_manual commit dddd6cf3ff59f2a877d03930fcf0563240fb40d8"
| author | iuc |
|---|---|
| date | Wed, 06 Jan 2021 14:15:37 +0000 |
| parents | 7f1bac9c4478 |
| children |
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--- a/data_manager/data_manager_manual.py Sun Feb 02 22:34:30 2020 +0000 +++ b/data_manager/data_manager_manual.py Wed Jan 06 14:15:37 2021 +0000 @@ -58,7 +58,7 @@ if tdtm is None: from tool_shed.tools import data_table_manager tdtm = data_table_manager.ToolDataTableManager(app) - target_dir, tool_path, relative_target_dir = tdtm.get_target_install_dir(tool_shed_repository) + target_dir = tool_shed_repository.repo_path(app) # Dynamically add this data table log.debug("Attempting to dynamically create a missing Tool Data Table named %s." % data_table_name) repo_info = tdtm.generate_repository_info_elem_from_repository(tool_shed_repository, parent_elem=None) @@ -162,14 +162,14 @@ filename = args[0] with open(filename) as fh: - params = json.loads(fh.read()) + params = json.load(fh) target_directory = params['output_data'][0]['extra_files_path'] data_table_entries = get_data_table_entries(params['param_dict'], options.galaxy_data_manager_data_path) # save info to json file with open(filename, 'w') as fh: - fh.write(json.dumps({"data_tables": data_table_entries}, sort_keys=True)) + json.dump({"data_tables": data_table_entries}, fh, sort_keys=True) get_file_content(params['param_dict'], target_directory)
