def setUp(self):
self.widget = self.create_widget(OWMDS,
stored_settings={
"__version__": 2,
"max_iter": 10,
"initialization": OWMDS.PCA,
}) # type: OWMDS
self.towns = DistMatrix.from_file(
os.path.join(self.datasets_dir, "slovenian-towns.dst"))
def setUp(self):
self.widget = self.create_widget(
OWMDS, stored_settings={
"__version__": 2,
"max_iter": 10,
"initialization": OWMDS.PCA,
}
) # type: OWMDS
self.towns = DistMatrix.from_file(
os.path.join(self.datasets_dir, "slovenian-towns.dst"))
def _save_and_load(self):
widget = self.widget
widget.auto_save = False
with named_file("", suffix=".dst") as filename:
widget.get_save_filename = Mock(return_value=(filename,
widget.filters[0]))
self.send_signal(widget.Inputs.distances, self.distances)
widget.save_file_as()
return DistMatrix.from_file(filename)
def test_save(self):
with named_file(
"""3 axis=1 row_labels
danny 0.12 3.45 6.78
eve 9.01 2.34 5.67
frank 8.90""") as name:
m = DistMatrix.from_file(name)
m.save(name)
m = DistMatrix.from_file(name)
np.testing.assert_almost_equal(m, np.array([[0.12, 9.01, 8.90],
[9.01, 2.34, 0],
[8.90, 0, 0]]))
self.assertIsInstance(m.row_items, Table)
self.assertIsNone(m.col_items)
self.assertEqual([e.metas[0] for e in m.row_items],
["danny", "eve", "frank"])
self.assertEqual(m.axis, 1)
with named_file(
"""3 axis=0 asymmetric col_labels row_labels
ann bert chad
danny 0.12 3.45 6.78
eve 9.01 2.34 5.67
frank 8.90 1.23 4.56""") as name:
m = DistMatrix.from_file(name)
m.save(name)
m = DistMatrix.from_file(name)
np.testing.assert_almost_equal(m, np.array([[0.12, 3.45, 6.78],
[9.01, 2.34, 5.67],
[8.90, 1.23, 4.56]]))
self.assertIsInstance(m.row_items, Table)
self.assertIsInstance(m.col_items, Table)
self.assertEqual([e.metas[0] for e in m.col_items],
["ann", "bert", "chad"])
self.assertEqual([e.metas[0] for e in m.row_items],
["danny", "eve", "frank"])
self.assertEqual(m.axis, 0)
def test_save(self):
with named_file(
"""3 axis=1 row_labels
danny 0.12 3.45 6.78
eve 9.01 2.34 5.67
frank 8.90""") as name:
m = DistMatrix.from_file(name)
m.save(name)
m = DistMatrix.from_file(name)
np.testing.assert_almost_equal(m, np.array([[0.12, 9.01, 8.90],
[9.01, 2.34, 0],
[8.90, 0, 0]]))
self.assertIsInstance(m.row_items, Table)
self.assertIsNone(m.col_items)
self.assertEqual([e.metas[0] for e in m.row_items],
["danny", "eve", "frank"])
self.assertEqual(m.axis, 1)
with named_file(
"""3 axis=0 asymmetric col_labels row_labels
ann bert chad
danny 0.12 3.45 6.78
eve 9.01 2.34 5.67
frank 8.90 1.23 4.56""") as name:
m = DistMatrix.from_file(name)
m.save(name)
m = DistMatrix.from_file(name)
np.testing.assert_almost_equal(m, np.array([[0.12, 3.45, 6.78],
[9.01, 2.34, 5.67],
[8.90, 1.23, 4.56]]))
self.assertIsInstance(m.row_items, Table)
self.assertIsInstance(m.col_items, Table)
self.assertEqual([e.metas[0] for e in m.col_items],
["ann", "bert", "chad"])
self.assertEqual([e.metas[0] for e in m.row_items],
["danny", "eve", "frank"])
self.assertEqual(m.axis, 0)
def open_file(self):
self.error()
self.warning()
self.information()
fn = self.last_path()
if not fn:
return
if not os.path.exists(fn):
dir_name, basename = os.path.split(fn)
if os.path.exists(os.path.join(".", basename)):
fn = os.path.join(".", basename)
self.information("Loading '{}' from the current directory."
.format(basename))
if fn == "(none)":
self.send("Distances", None)
self.infoa.setText("No data loaded")
self.infob.setText("")
self.warnings.setText("")
return
self.loaded_file = ""
try:
distances = DistMatrix.from_file(fn)
self.loaded_file = fn
except Exception as exc:
err_value = str(exc)
self.error("Invalid file format")
self.infoa.setText('Data was not loaded due to an error.')
self.warnings.setText(err_value)
distances = None
if distances is not None:
self.infoa.setText(
"{} points(s), ".format(len(distances)) +
(["unlabelled", "labelled"][distances.row_items is not None]))
self.warnings.setText("")
file_name = os.path.split(fn)[1]
if "." in file_name:
distances.name = file_name[:file_name.rfind('.')]
else:
distances.name = file_name
self.send("Distances", distances)
def open_file(self):
self.clear_messages()
fn = self.last_path()
if not fn:
return
if not os.path.exists(fn):
dir_name, basename = os.path.split(fn)
if os.path.exists(os.path.join(".", basename)):
fn = os.path.join(".", basename)
self.information(
"Loading '{}' from the current directory.".format(
basename))
if fn == "(none)":
self.Outputs.distances.send(None)
self.infoa.setText("No data loaded")
self.infob.setText("")
self.warnings.setText("")
return
self.loaded_file = ""
try:
distances = DistMatrix.from_file(fn)
self.loaded_file = fn
except Exception as exc:
err_value = str(exc)
self.error("Invalid file format")
self.infoa.setText('错误，数据未加载。')
self.warnings.setText(err_value)
distances = None
if distances is not None:
self.infoa.setText("{} 个点, ".format(len(distances)) + (
["未标记", "已标记"][distances.row_items is not None]))
self.warnings.setText("")
file_name = os.path.split(fn)[1]
if "." in file_name:
distances.name = file_name[:file_name.rfind('.')]
else:
distances.name = file_name
self.Outputs.distances.send(distances)
def test_from_file(self):
with named_file("""3 axis=0 asymmetric col_labels row_labels
ann bert chad
danny 0.12 3.45 6.78
eve 9.01 2.34 5.67
frank 8.90 1.23 4.56""") as name:
m = DistMatrix.from_file(name)
np.testing.assert_almost_equal(
m,
np.array([[0.12, 3.45, 6.78], [9.01, 2.34, 5.67],
[8.90, 1.23, 4.56]]))
self.assertIsInstance(m.row_items, Table)
self.assertIsInstance(m.col_items, Table)
self.assertEqual([e.metas[0] for e in m.col_items],
["ann", "bert", "chad"])
self.assertEqual([e.metas[0] for e in m.row_items],
["danny", "eve", "frank"])
self.assertEqual(m.axis, 0)
with named_file("""3 axis=1 row_labels
danny 0.12 3.45 6.78
eve 9.01 2.34 5.67
frank 8.90""") as name:
m = DistMatrix.from_file(name)
np.testing.assert_almost_equal(
m, np.array([[0.12, 9.01, 8.90], [9.01, 2.34, 0], [8.90, 0,
0]]))
self.assertIsInstance(m.row_items, Table)
self.assertIsNone(m.col_items)
self.assertEqual([e.metas[0] for e in m.row_items],
["danny", "eve", "frank"])
self.assertEqual(m.axis, 1)
with named_file("""3 axis=1 symmetric
0.12 3.45 6.78
9.01 2.34 5.67
8.90""") as name:
m = DistMatrix.from_file(name)
np.testing.assert_almost_equal(
m, np.array([[0.12, 9.01, 8.90], [9.01, 2.34, 0], [8.90, 0, 0]]))
with named_file("""3 row_labels
starič 0.12 3.45 6.78
aleš 9.01 2.34 5.67
anže 8.90""",
encoding="utf-8"
"") as name:
m = DistMatrix.from_file(name)
np.testing.assert_almost_equal(
m, np.array([[0.12, 9.01, 8.90], [9.01, 2.34, 0], [8.90, 0,
0]]))
self.assertIsInstance(m.row_items, Table)
self.assertIsNone(m.col_items)
self.assertEqual([e.metas[0] for e in m.row_items],
["starič", "aleš", "anže"])
self.assertEqual(m.axis, 1)
def assertErrorMsg(content, msg):
with named_file(content) as name:
with self.assertRaises(ValueError) as cm:
DistMatrix.from_file(name)
self.assertEqual(str(cm.exception), msg)
assertErrorMsg("", "empty file")
assertErrorMsg("axis=1\n1\t3\n4",
"distance file must begin with dimension")
assertErrorMsg("3 col_labels\na\tb\n1\n\2\n3",
"mismatching number of column labels")
assertErrorMsg("3 col_labels\na\tb\tc\td\n1\n\2\n3",
"mismatching number of column labels")
assertErrorMsg("2\n 1\t2\t3\n 5", "too many columns in matrix row 1")
assertErrorMsg("2 row_labels\na\t1\t2\t3\nb\t5",
"too many columns in matrix row 'a'")
assertErrorMsg("2 noflag\n 1\t2\t3\n 5", "invalid flag 'noflag'")
assertErrorMsg("2 noflag=5\n 1\t2\t3\n 5", "invalid flag 'noflag=5'")
assertErrorMsg("2\n1\n2\n3", "too many rows")
assertErrorMsg("2\n1\nasd", "invalid element at row 2, column 1")
assertErrorMsg("2 row_labels\na\t1\nb\tasd",
"invalid element at row 'b', column 1")
assertErrorMsg("2 col_labels row_labels\nd\te\na\t1\nb\tasd",
"invalid element at row 'b', column 'd'")
assertErrorMsg("2 col_labels\nd\te\n1\nasd",
"invalid element at row 2, column 'd'")
def assertErrorMsg(content, msg):
with named_file(content) as name:
with self.assertRaises(ValueError) as cm:
DistMatrix.from_file(name)
self.assertEqual(str(cm.exception), msg)
def test_from_file(self):
with named_file(
"""3 axis=0 asymmetric col_labels row_labels
ann bert chad
danny 0.12 3.45 6.78
eve 9.01 2.34 5.67
frank 8.90 1.23 4.56""") as name:
m = DistMatrix.from_file(name)
np.testing.assert_almost_equal(m, np.array([[0.12, 3.45, 6.78],
[9.01, 2.34, 5.67],
[8.90, 1.23, 4.56]]))
self.assertIsInstance(m.row_items, Table)
self.assertIsInstance(m.col_items, Table)
self.assertEqual([e.metas[0] for e in m.col_items],
["ann", "bert", "chad"])
self.assertEqual([e.metas[0] for e in m.row_items],
["danny", "eve", "frank"])
self.assertEqual(m.axis, 0)
with named_file(
"""3 axis=1 row_labels
danny 0.12 3.45 6.78
eve 9.01 2.34 5.67
frank 8.90""") as name:
m = DistMatrix.from_file(name)
np.testing.assert_almost_equal(m, np.array([[0.12, 9.01, 8.90],
[9.01, 2.34, 0],
[8.90, 0, 0]]))
self.assertIsInstance(m.row_items, Table)
self.assertIsNone(m.col_items)
self.assertEqual([e.metas[0] for e in m.row_items],
["danny", "eve", "frank"])
self.assertEqual(m.axis, 1)
with named_file(
"""3 axis=1 symmetric
0.12 3.45 6.78
9.01 2.34 5.67
8.90""") as name:
m = DistMatrix.from_file(name)
np.testing.assert_almost_equal(m, np.array([[0.12, 9.01, 8.90],
[9.01, 2.34, 0],
[8.90, 0, 0]]))
with named_file(
"""3 row_labels
starič 0.12 3.45 6.78
aleš 9.01 2.34 5.67
anže 8.90""", encoding="utf-8""") as name:
m = DistMatrix.from_file(name)
np.testing.assert_almost_equal(m, np.array([[0.12, 9.01, 8.90],
[9.01, 2.34, 0],
[8.90, 0, 0]]))
self.assertIsInstance(m.row_items, Table)
self.assertIsNone(m.col_items)
self.assertEqual([e.metas[0] for e in m.row_items],
["starič", "aleš", "anže"])
self.assertEqual(m.axis, 1)
def assertErrorMsg(content, msg):
with named_file(content) as name:
with self.assertRaises(ValueError) as cm:
DistMatrix.from_file(name)
self.assertEqual(str(cm.exception), msg)
assertErrorMsg("",
"empty file")
assertErrorMsg("axis=1\n1\t3\n4",
"distance file must begin with dimension")
assertErrorMsg("3 col_labels\na\tb\n1\n\2\n3",
"mismatching number of column labels")
assertErrorMsg("3 col_labels\na\tb\tc\td\n1\n\2\n3",
"mismatching number of column labels")
assertErrorMsg("2\n 1\t2\t3\n 5",
"too many columns in matrix row 1")
assertErrorMsg("2 row_labels\na\t1\t2\t3\nb\t5",
"too many columns in matrix row 'a'")
assertErrorMsg("2 noflag\n 1\t2\t3\n 5",
"invalid flag 'noflag'")
assertErrorMsg("2 noflag=5\n 1\t2\t3\n 5",
"invalid flag 'noflag=5'")
assertErrorMsg("2\n1\n2\n3",
"too many rows")
assertErrorMsg("2\n1\nasd",
"invalid element at row 2, column 1")
assertErrorMsg("2 row_labels\na\t1\nb\tasd",
"invalid element at row 'b', column 1")
assertErrorMsg("2 col_labels row_labels\nd\te\na\t1\nb\tasd",
"invalid element at row 'b', column 'd'")
assertErrorMsg("2 col_labels\nd\te\n1\nasd",
"invalid element at row 2, column 'd'")
def assertErrorMsg(content, msg):
with named_file(content) as name:
with self.assertRaises(ValueError) as cm:
DistMatrix.from_file(name)
self.assertEqual(str(cm.exception), msg)
