David, Peter roger that and thanks so much!!
On Wed, Feb 26, 2014 at 1:29 PM, Peter Otten <__pete...@web.de> wrote: > rahmad akbar wrote: > > > hey guys > > > > i have this file i wish to parse, the file looks something like bellow. > > there are only four entry here (AaaI, AacLI, AaeI, AagI). the complete > > file contains thousands of entries > > > > =-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-= > > REBASE, The Restriction Enzyme Database http://rebase.neb.com > > Copyright (c) Dr. Richard J. Roberts, 2014. All rights reserved. > > =-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-= > > > > Rich Roberts Jan 30 > > 2014 > > > > AaaI (XmaIII) C^GGCCG > > AacLI (BamHI) GGATCC > > AaeI (BamHI) GGATCC > > AagI (ClaI) AT^CGAT > > > > > > the strategy was to mark the string 'Rich Roberts' as the start. i wrote > > the following function. but then i realized i couldn't do something like > > .next() to the var in_file which is a list. so i added a flag start = > > False in which will be turned to True upon 'Rich Roberts' found. is the > > any simpler way to move to the next element in the list. like built in > > method or something like that. > > > > def read_bionet(bionetfile): > > res_enzime_dict = {} > > in_file = open(bionetfile, 'r').readlines() > > start = False > > for line in in_file: > > if line.startswith('Rich Roberts'): > > start = True > > if start and len(line) >= 10: > > line = line.split() > > res_enzime_dict[line[0]] = line[-1] > > return res_enzime_dict > > As David says, don't call readlines() which reads the lines of the file > into > a list, iterate over the file directly: > > def read_bionet(bionetfile): > with open(bionetfile) as in_file: > # skip header > for line in in_file: > if line.startswith("Rich Roberts"): > break > > # populate dict > res_enzimes = {} > for line in in_file: # continues after the line with R. R. > if len(line) >= 10: > parts = line.split() > res_enzimes[parts[0]] = parts[-1] > > # file will be closed now rather than at > # the garbage collector's discretion > > return res_enzimes > > > _______________________________________________ > Tutor maillist - Tutor@python.org > To unsubscribe or change subscription options: > https://mail.python.org/mailman/listinfo/tutor > -- many thanks mat
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