You cannot select more than 25 topics
Topics must start with a letter or number, can include dashes ('-') and can be up to 35 characters long.
260 lines
8.0 KiB
Python
260 lines
8.0 KiB
Python
from __future__ import division, print_function, absolute_import
|
|
|
|
import datetime
|
|
import os
|
|
import sys
|
|
from os.path import join as pjoin
|
|
|
|
if sys.version_info[0] >= 3:
|
|
from io import StringIO
|
|
else:
|
|
from cStringIO import StringIO
|
|
|
|
import numpy as np
|
|
|
|
from numpy.testing import (assert_array_almost_equal,
|
|
assert_array_equal, assert_equal, assert_)
|
|
import pytest
|
|
from pytest import raises as assert_raises
|
|
|
|
from scipy.io.arff.arffread import loadarff
|
|
from scipy.io.arff.arffread import read_header, parse_type, ParseArffError
|
|
|
|
|
|
data_path = pjoin(os.path.dirname(__file__), 'data')
|
|
|
|
test1 = pjoin(data_path, 'test1.arff')
|
|
test2 = pjoin(data_path, 'test2.arff')
|
|
test3 = pjoin(data_path, 'test3.arff')
|
|
|
|
test4 = pjoin(data_path, 'test4.arff')
|
|
test5 = pjoin(data_path, 'test5.arff')
|
|
test6 = pjoin(data_path, 'test6.arff')
|
|
test7 = pjoin(data_path, 'test7.arff')
|
|
test8 = pjoin(data_path, 'test8.arff')
|
|
expect4_data = [(0.1, 0.2, 0.3, 0.4, 'class1'),
|
|
(-0.1, -0.2, -0.3, -0.4, 'class2'),
|
|
(1, 2, 3, 4, 'class3')]
|
|
expected_types = ['numeric', 'numeric', 'numeric', 'numeric', 'nominal']
|
|
|
|
missing = pjoin(data_path, 'missing.arff')
|
|
expect_missing_raw = np.array([[1, 5], [2, 4], [np.nan, np.nan]])
|
|
expect_missing = np.empty(3, [('yop', float), ('yap', float)])
|
|
expect_missing['yop'] = expect_missing_raw[:, 0]
|
|
expect_missing['yap'] = expect_missing_raw[:, 1]
|
|
|
|
|
|
class TestData(object):
|
|
def test1(self):
|
|
# Parsing trivial file with nothing.
|
|
self._test(test4)
|
|
|
|
def test2(self):
|
|
# Parsing trivial file with some comments in the data section.
|
|
self._test(test5)
|
|
|
|
def test3(self):
|
|
# Parsing trivial file with nominal attribute of 1 character.
|
|
self._test(test6)
|
|
|
|
def _test(self, test_file):
|
|
data, meta = loadarff(test_file)
|
|
for i in range(len(data)):
|
|
for j in range(4):
|
|
assert_array_almost_equal(expect4_data[i][j], data[i][j])
|
|
assert_equal(meta.types(), expected_types)
|
|
|
|
def test_filelike(self):
|
|
# Test reading from file-like object (StringIO)
|
|
f1 = open(test1)
|
|
data1, meta1 = loadarff(f1)
|
|
f1.close()
|
|
f2 = open(test1)
|
|
data2, meta2 = loadarff(StringIO(f2.read()))
|
|
f2.close()
|
|
assert_(data1 == data2)
|
|
assert_(repr(meta1) == repr(meta2))
|
|
|
|
@pytest.mark.skipif(sys.version_info < (3, 6),
|
|
reason='Passing path-like objects to IO functions requires Python >= 3.6')
|
|
def test_path(self):
|
|
# Test reading from `pathlib.Path` object
|
|
from pathlib import Path
|
|
|
|
with open(test1) as f1:
|
|
data1, meta1 = loadarff(f1)
|
|
|
|
data2, meta2 = loadarff(Path(test1))
|
|
|
|
assert_(data1 == data2)
|
|
assert_(repr(meta1) == repr(meta2))
|
|
|
|
class TestMissingData(object):
|
|
def test_missing(self):
|
|
data, meta = loadarff(missing)
|
|
for i in ['yop', 'yap']:
|
|
assert_array_almost_equal(data[i], expect_missing[i])
|
|
|
|
|
|
class TestNoData(object):
|
|
def test_nodata(self):
|
|
# The file nodata.arff has no data in the @DATA section.
|
|
# Reading it should result in an array with length 0.
|
|
nodata_filename = os.path.join(data_path, 'nodata.arff')
|
|
data, meta = loadarff(nodata_filename)
|
|
expected_dtype = np.dtype([('sepallength', '<f8'),
|
|
('sepalwidth', '<f8'),
|
|
('petallength', '<f8'),
|
|
('petalwidth', '<f8'),
|
|
('class', 'S15')])
|
|
assert_equal(data.dtype, expected_dtype)
|
|
assert_equal(data.size, 0)
|
|
|
|
|
|
class TestHeader(object):
|
|
def test_type_parsing(self):
|
|
# Test parsing type of attribute from their value.
|
|
ofile = open(test2)
|
|
rel, attrs = read_header(ofile)
|
|
ofile.close()
|
|
|
|
expected = ['numeric', 'numeric', 'numeric', 'numeric', 'numeric',
|
|
'numeric', 'string', 'string', 'nominal', 'nominal']
|
|
|
|
for i in range(len(attrs)):
|
|
assert_(parse_type(attrs[i][1]) == expected[i])
|
|
|
|
def test_badtype_parsing(self):
|
|
# Test parsing wrong type of attribute from their value.
|
|
ofile = open(test3)
|
|
rel, attrs = read_header(ofile)
|
|
ofile.close()
|
|
|
|
for name, value in attrs:
|
|
assert_raises(ParseArffError, parse_type, value)
|
|
|
|
def test_fullheader1(self):
|
|
# Parsing trivial header with nothing.
|
|
ofile = open(test1)
|
|
rel, attrs = read_header(ofile)
|
|
ofile.close()
|
|
|
|
# Test relation
|
|
assert_(rel == 'test1')
|
|
|
|
# Test numerical attributes
|
|
assert_(len(attrs) == 5)
|
|
for i in range(4):
|
|
assert_(attrs[i][0] == 'attr%d' % i)
|
|
assert_(attrs[i][1] == 'REAL')
|
|
|
|
# Test nominal attribute
|
|
assert_(attrs[4][0] == 'class')
|
|
assert_(attrs[4][1] == '{class0, class1, class2, class3}')
|
|
|
|
def test_dateheader(self):
|
|
ofile = open(test7)
|
|
rel, attrs = read_header(ofile)
|
|
ofile.close()
|
|
|
|
assert_(rel == 'test7')
|
|
|
|
assert_(len(attrs) == 5)
|
|
|
|
assert_(attrs[0][0] == 'attr_year')
|
|
assert_(attrs[0][1] == 'DATE yyyy')
|
|
|
|
assert_(attrs[1][0] == 'attr_month')
|
|
assert_(attrs[1][1] == 'DATE yyyy-MM')
|
|
|
|
assert_(attrs[2][0] == 'attr_date')
|
|
assert_(attrs[2][1] == 'DATE yyyy-MM-dd')
|
|
|
|
assert_(attrs[3][0] == 'attr_datetime_local')
|
|
assert_(attrs[3][1] == 'DATE "yyyy-MM-dd HH:mm"')
|
|
|
|
assert_(attrs[4][0] == 'attr_datetime_missing')
|
|
assert_(attrs[4][1] == 'DATE "yyyy-MM-dd HH:mm"')
|
|
|
|
def test_dateheader_unsupported(self):
|
|
ofile = open(test8)
|
|
rel, attrs = read_header(ofile)
|
|
ofile.close()
|
|
|
|
assert_(rel == 'test8')
|
|
|
|
assert_(len(attrs) == 2)
|
|
assert_(attrs[0][0] == 'attr_datetime_utc')
|
|
assert_(attrs[0][1] == 'DATE "yyyy-MM-dd HH:mm Z"')
|
|
|
|
assert_(attrs[1][0] == 'attr_datetime_full')
|
|
assert_(attrs[1][1] == 'DATE "yy-MM-dd HH:mm:ss z"')
|
|
|
|
|
|
class TestDateAttribute(object):
|
|
def setup_method(self):
|
|
self.data, self.meta = loadarff(test7)
|
|
|
|
def test_year_attribute(self):
|
|
expected = np.array([
|
|
'1999',
|
|
'2004',
|
|
'1817',
|
|
'2100',
|
|
'2013',
|
|
'1631'
|
|
], dtype='datetime64[Y]')
|
|
|
|
assert_array_equal(self.data["attr_year"], expected)
|
|
|
|
def test_month_attribute(self):
|
|
expected = np.array([
|
|
'1999-01',
|
|
'2004-12',
|
|
'1817-04',
|
|
'2100-09',
|
|
'2013-11',
|
|
'1631-10'
|
|
], dtype='datetime64[M]')
|
|
|
|
assert_array_equal(self.data["attr_month"], expected)
|
|
|
|
def test_date_attribute(self):
|
|
expected = np.array([
|
|
'1999-01-31',
|
|
'2004-12-01',
|
|
'1817-04-28',
|
|
'2100-09-10',
|
|
'2013-11-30',
|
|
'1631-10-15'
|
|
], dtype='datetime64[D]')
|
|
|
|
assert_array_equal(self.data["attr_date"], expected)
|
|
|
|
def test_datetime_local_attribute(self):
|
|
expected = np.array([
|
|
datetime.datetime(year=1999, month=1, day=31, hour=0, minute=1),
|
|
datetime.datetime(year=2004, month=12, day=1, hour=23, minute=59),
|
|
datetime.datetime(year=1817, month=4, day=28, hour=13, minute=0),
|
|
datetime.datetime(year=2100, month=9, day=10, hour=12, minute=0),
|
|
datetime.datetime(year=2013, month=11, day=30, hour=4, minute=55),
|
|
datetime.datetime(year=1631, month=10, day=15, hour=20, minute=4)
|
|
], dtype='datetime64[m]')
|
|
|
|
assert_array_equal(self.data["attr_datetime_local"], expected)
|
|
|
|
def test_datetime_missing(self):
|
|
expected = np.array([
|
|
'nat',
|
|
'2004-12-01T23:59',
|
|
'nat',
|
|
'nat',
|
|
'2013-11-30T04:55',
|
|
'1631-10-15T20:04'
|
|
], dtype='datetime64[m]')
|
|
|
|
assert_array_equal(self.data["attr_datetime_missing"], expected)
|
|
|
|
def test_datetime_timezone(self):
|
|
assert_raises(ValueError, loadarff, test8)
|