annotate test/test_match_library.py @ 30:60b53f2aa48a

Small fixes, added microminutes support to MsClust, removed TIC or MsClust output

'''
Created on Mar 6, 2012

@author: marcelk
'''
from GCMS import match_library
import unittest
from pkg_resources import resource_filename  # @UnresolvedImport # pylint: disable=E0611


class Test(unittest.TestCase):
    '''
    Tests the 'match_library' Galaxy tool
    '''
    nist_db = resource_filename(__name__, "data/RIDB_subset.txt")

    def test_get_column_type(self):
        '''
        Tests the 'get_column_type' function that returns tuples of unique elements
        for column types in the RI database
        '''
        galaxy_output = match_library.get_column_type(self.nist_db)
        self.assertEqual([('Capillary(9999)', 'Capillary', False)], galaxy_output)

    def test_filter_column(self):
        '''
        Tests the 'filter_column' function showing the column phase for all 'Capillary' columns
        '''
        galaxy_output = match_library.filter_column(self.nist_db, 'Capillary')
        self.assertEqual([('Semi-standard non-polar(9999)', 'Semi-standard non-polar', False)], galaxy_output)

    def test_filter_column2(self):
        '''
        Tests the 'filter_column' function showing all possibilities for columns having both the
        'Capillary' and 'Semi-standard non-polar' properties
        '''
        galaxy_output = match_library.filter_column2(self.nist_db, 'Capillary', 'Semi-standard non-polar')
        self.failUnless(('Apiezon M(6)', 'Apiezon M', False) in galaxy_output)

    def test_count_occurrence(self):
        '''
        Tests the 'count_occurrence' function
        '''
        test_list = [2, 0, 0, 2, 1, 3, 4, 5, 3, 2, 3, 4, 5, 5, 4, 2, 5, 3, 4, 3, 5, 4, 2, 0, 4]
        counts = match_library.count_occurrence(test_list)
        self.assertEqual({0: 3, 1: 1, 2: 5, 3: 5, 4: 6, 5: 5}, counts)


if __name__ == "__main__":
    #import sys;sys.argv = ['', 'Test.testName']
    unittest.main()