#!/usr/bin/env python3

from __future__ import print_function
import pymzml
import os


def main():
    """
    Testscript to highlight the function name changes in the Spectrum class.

    Note:
        Please adjust any old scripts to the new syntax.

    usage:

        ./deprecation_check.py

    """

    example_file = os.path.join(
        os.path.dirname(__file__),
        os.pardir,
        'tests',
        'data',
        'example.mzML'
    )
    run = pymzml.run.Reader(example_file,)
    spectrum_list = [ ]
    for pos, spectrum in enumerate(run):
        spectrum_list.append(spectrum)
        spectrum.hasPeak( ( 813.19073486 ) )
        spectrum.extremeValues( 'mz' )
        spectrum.hasOverlappingPeak( 813.19073486  )
        spectrum.highestPeaks( 1 )
        spectrum.estimatedNoiseLevel()
        spectrum.removeNoise()
        spectrum.transformMZ( 813.19073486 )
        if pos == 1:
            spectrum.similarityTo(
                spectrum_list[0]
            )
            break      

if __name__ == '__main__':
    main()
