def test_get_fs_methods(self):
"""this test is going to make sure that we are only implementing feature selection methods that are in a predefined list.
"""
self.assertEqual(fizzy.get_fs_methods(), information_theoretic_methods)
def test_get_fs_methods(self):
"""this test is going to make sure that we are only implementing feature selection methods that are in a predefined list.
"""
self.assertEqual(fizzy.get_fs_methods(), information_theoretic_methods)
make_option('-o',
'--output_path',
type="new_filepath",
help='the output file')
]
script_info['optional_options'] = [
make_option('-k',
'--n_select',
type="int",
help='number of features to select [default: %default]',
default=15),
make_option('-f',
'--fs_method',
type='choice',
help='feature selection method. valid options are '
+ ', '.join(fizzy.get_fs_methods()) + '. [default: %default]',
choices=fizzy.get_fs_methods(),
default='MIM')
]
script_info['version'] = __version__
def main():
"""
main()
"""
option_parser, opts, args = parse_command_line_parameters(**script_info)
# run the fizzy feature selection routine
fizzy.run_feature_selection(
make_option('-o',
'--output_fp',
type="new_filepath",
help='the output file')
]
script_info['optional_options'] = [
make_option('-k',
'--n_select',
type="int",
help='number of features to select [default: %default]',
default=15),
make_option('-f',
'--fs_method',
type='choice',
help='feature selection method. valid options are ' +
', '.join(fizzy.get_fs_methods()) + '. [default: %default]',
choices=fizzy.get_fs_methods(),
default='MIM')
]
script_info['version'] = __version__
def main():
"""
main()
"""
option_parser, opts, args = parse_command_line_parameters(**script_info)
# run the fizzy feature selection routine
selected_features = fizzy.run_feature_selection(open(opts.input_fp, 'U'),
open(opts.mapping_fp, 'U'),
