Mercurial > repos > iuc > data_manager_gemini_database_downloader

comparison data_manager/data_manager_gemini_download.py @ 8:52b6a4d98009 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gemini_database_downloader commit 02d2967f77e3fa5a18aea63dc84aa9ab418dc165"
author iuc
date Sun, 22 Nov 2020 12:49:35 +0000
parents 5bcf0e24f42c
children 27a6a256cd23
comparison
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7:5bcf0e24f42c 8:52b6a4d98009
14 yaml.dump(config, fo, allow_unicode=False, default_flow_style=False) 14 yaml.dump(config, fo, allow_unicode=False, default_flow_style=False)
15 15
16 16
17 def main(): 17 def main():
18 today = datetime.date.today() 18 today = datetime.date.today()
19 params = json.loads(open(sys.argv[1]).read()) 19 with open(sys.argv[1]) as fh:
20 params = json.load(fh)
20 target_directory = params['output_data'][0]['extra_files_path'] 21 target_directory = params['output_data'][0]['extra_files_path']
21 os.mkdir(target_directory) 22 os.mkdir(target_directory)
22 23
23 # Generate a minimal configuration file for GEMINI update 24 # Generate a minimal configuration file for GEMINI update
24 # to instruct the tool to download the annotation data into a 25 # to instruct the tool to download the annotation data into a
81 ] 82 ]
82 } 83 }
83 } 84 }
84 85
85 # ... and save it to the json results file 86 # ... and save it to the json results file
86 with open(sys.argv[1], 'w') as out: 87 with open(sys.argv[1], 'w') as fh:
87 out.write(json.dumps(data_manager_dict)) 88 json.dump(data_manager_dict, fh, sort_keys=True)
88 89
89 90
90 if __name__ == "__main__": 91 if __name__ == "__main__":
91 main() 92 main()