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comparison data_manager/data_manager_snpEff_download.py @ 6:eb394dd65c98

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Add mutli-select to data managers from Bjoern, filter unique database options in snpEff_download.xml snpEff.xml
author Jim Johnson <jj@umn.edu>
date Thu, 28 Nov 2013 08:16:11 -0600
parents 8952990fcab9
children
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5:8952990fcab9 6:eb394dd65c98
102 os.mkdir( target_directory ) 102 os.mkdir( target_directory )
103 data_manager_dict = {} 103 data_manager_dict = {}
104 104
105 105
106 #Create SnpEff Reference Data 106 #Create SnpEff Reference Data
107 download_database(data_manager_dict, target_directory, options.jar_path,options.config,options.genome_version,options.organism) 107 for genome_version, organism in zip(options.genome_version.split(','), options.organism.split(',')):
108 download_database( data_manager_dict, target_directory, options.jar_path, options.config, genome_version, organism )
108 109
109 #save info to json file 110 #save info to json file
110 open( filename, 'wb' ).write( to_json_string( data_manager_dict ) ) 111 open( filename, 'wb' ).write( to_json_string( data_manager_dict ) )
111 112
112 if __name__ == "__main__": main() 113 if __name__ == "__main__": main()