# Source code for pymzml.file_classes.standardGzip

    #!/usr/bin/env python3
    # -*- coding: utf-8 -*-
    """
    Interface for gzipped mzML files.
    """
    from __future__ import print_function
    import codecs
    import pymzml.regex_patterns as regex_patterns
    import gzip
    import pymzml.spec as spec
    from xml.etree.ElementTree import iterparse

    class StandardGzip(object):
        """
        """
        def __init__(self, path, encoding):
            """
            Initalize Wrapper object for gzipped mzML files.

            Arguments:
                path (str)     : path to the file
                encoding (str) : encoding of the file
            """
            self.path         = path
            self.file_handler = codecs.getreader(encoding)(
                gzip.open(path)
            )
            self.offset_dict = self._build_index()
            return

        def close(self):
            self.file_handler.close()

        def _build_index(self):
            """
            Cant build index for standard gzip files
            """
            # raise Exception('Cant build index for gzip files')
            pass

        def read(self, size=-1):
            """
            Read binary data from file handler.

            Keyword Arguments:
                size (int): Number of bytes to read from file, -1 to read to end of file

            Returns:
                data (str): byte string of len size of input data
            """
            return self.file_handler.read(size)

        def __getitem__(self, identifier):
            """
            Access the item with id 'identifier' in the file by iterating the xml-tree.

            Arguments:
                identifier (str): native id of the item to access

            Returns:
                data (str): text associated with the given identifier
            """
            old_pos = self.file_handler.tell()
            self.file_handler.seek(0, 0)
            mzml_iter = iter(iterparse(self.file_handler, events=['end']))
            while True:
                event, element = next(mzml_iter)
                if event == 'end':
                    if element.tag.endswith('}spectrum'):
                        if int(regex_patterns.SPECTRUM_ID_PATTERN.search(
                                element.get('id')).group(0)) == identifier:
                            self.file_handler.seek(old_pos, 0)
                            return spec.Spectrum(element, measured_precision=5e-6)
                    elif element.tag.endswith('}chromatogram'):
                        if element.get('id') == identifier:
                            self.file_handler.seek(old_pos, 0)
                            return spec.Chromatogram(
                                element,
                                measured_precision=5e-6
                            )

    if __name__ == '__main__':
        print(__doc__)