#!/usr/bin/env python """ Updates dataset.size column. Remember to backup your database before running. """ import sys, os, ConfigParser import galaxy.app assert sys.version_info[:2] >= ( 2, 4 ) def main(): ini_file = sys.argv.pop(1) conf_parser = ConfigParser.ConfigParser( {'here':os.getcwd()} ) conf_parser.read( ini_file ) configuration = {} for key, value in conf_parser.items( "app:main" ): configuration[key] = value app = galaxy.app.UniverseApplication( global_conf = ini_file, **configuration ) #Step through Datasets, determining size on disk for each. print "Determining the size of each dataset..." for row in app.model.Dataset.table.select().execute(): purged = app.model.Dataset.get( row.id ).purged file_size = app.model.Dataset.get( row.id ).file_size if file_size is None and not purged: size_on_disk = app.model.Dataset.get( row.id ).get_size() print "Updating Dataset.%d with file_size: %d" %( row.id, size_on_disk ) app.model.Dataset.table.update( app.model.Dataset.table.c.id == row.id ).execute( file_size=size_on_disk ) app.shutdown() sys.exit(0) if __name__ == "__main__": main()