Mercurial > repos > iuc > data_manager_fetch_busco
comparison data_manager/data_manager.py @ 1:a7e1e2b008d3 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_fetch_busco/ commit 8b77954efb8d46dfb3bec5421819076f3757ad06"
| author | iuc |
|---|---|
| date | Sun, 26 Jan 2020 14:35:08 +0000 |
| parents | f799082cbe53 |
| children | 5b1215d19c64 |
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| 0:f799082cbe53 | 1:a7e1e2b008d3 |
|---|---|
| 54 target_directory = params['output_data'][0]['extra_files_path'] | 54 target_directory = params['output_data'][0]['extra_files_path'] |
| 55 os.mkdir(target_directory) | 55 os.mkdir(target_directory) |
| 56 output_path = os.path.abspath(os.path.join(os.getcwd(), 'busco')) | 56 output_path = os.path.abspath(os.path.join(os.getcwd(), 'busco')) |
| 57 for filename in os.listdir(workdir): | 57 for filename in os.listdir(workdir): |
| 58 shutil.move(os.path.join(output_path, filename), target_directory) | 58 shutil.move(os.path.join(output_path, filename), target_directory) |
| 59 file(args.output, 'w').write(json.dumps(data_manager_json)) | 59 with open(args.output, 'w') as out: |
| 60 out.write(json.dumps(data_manager_json, sort_keys=True)) | |
| 60 | 61 |
| 61 | 62 |
| 62 if __name__ == '__main__': | 63 if __name__ == '__main__': |
| 63 parser = argparse.ArgumentParser(description='Create data manager json.') | 64 parser = argparse.ArgumentParser(description='Create data manager json.') |
| 64 parser.add_argument('--out', dest='output', action='store', help='JSON filename') | 65 parser.add_argument('--out', dest='output', action='store', help='JSON filename') |