[Biopython-dev] [Bug 1753] New: Bio.PDB: parse_pdb_header.py last mod'd 9/05/2004

[bugzilla-daemon at portal.open-bio.org]

http://bugzilla.open-bio.org/show_bug.cgi?id=1753

           Summary: Bio.PDB: parse_pdb_header.py last mod'd 9/05/2004
           Product: Biopython
           Version: Not Applicable
          Platform: PC
        OS/Version: Windows XP
            Status: NEW
          Severity: normal
          Priority: P2
         Component: Other
        AssignedTo: biopython-dev at biopython.org
        ReportedBy: dgaffney at uvm.edu


parse_pdb_header() def takes a file handle according to the FAQ doc; the code
looks like it wants to open a filename. Might change line 111-120 to accept a
filename, keeping in mind that the FAQ should be changed too as well as the
__main__ test function (see further below):

***** PROPOSED CHANGE AT LINE 111-120:
def parse_pdb_header(fname):
    """
    Returns the header lines of a pdb file as a dictionary.

    Dictionary keys are: head, deposition_date, release_date, structure_method,
    resolution, structure_reference, journal_reference, author and
    compound.
    """
    header=[]
    f=open(fname,'r')

***** PROPOSED CHANGE AT LINES 252-257:
if __name__=='__main__':
    """
    Reads a PDB file passed as argument, parses its header, extracts
    some data and returns it as a dictionary.
    """
    dict = parse_pdb_header(sys.argv[1])



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