def setUp(self):
np.random.seed(626)
points = 100
dim = 1000
self.vector = 99. * (np.random.rand(points, dim) - 0.5)
self.label = np.random.randint(0, 5, points)
self.dist = euclidean_distance(self.vector)
self.dist /= self.dist.max()
def setUp(self):
points = 100
dim = 10
self.vector = 99. * (np.random.rand(points, dim) - 0.5)
self.label = np.random.randint(0, 5, points)
self.dist = euclidean_distance(self.vector)
self.SEC_DIST = set(['mp', 'mp_gauss', 'mp_gaussi', 'mp_gammai',
'ls', 'nicdm', 'snn', 'cent', 'wcent', 'lcent',
'dsg', 'dsl', 'orig'])
def setUpMod(self, mode='rnd'):
np.random.seed(626)
if mode == 'rnd':
points = 200
dim = 500
self.vector = 99. * (np.random.rand(points, dim) - 0.5)
self.label = np.random.randint(0, 5, points)
self.dist = euclidean_distance(self.vector)
#self.dist /= (self.dist.max() + 1e-12)
elif mode == 'toy':
# SNN (k=2) ground truth calculated by hand for this toy example
self.dist = squareform([.2, .1, .8, .4, .3, .5, .7, 1., .6, .9])
self.snn_dist_truth = squareform([.5, .5, .5, .5, .5,
.5, 0., 0., .5, .5])
self.vector = None
self.label = None
def setUpMod(self, mode='rnd'):
np.random.seed(626)
if mode == 'rnd':
points = 200
dim = 500
self.vector = 99. * (np.random.rand(points, dim) - 0.5)
self.label = np.random.randint(0, 5, points)
self.dist = euclidean_distance(self.vector)
elif mode == 'toy':
# LS/NICDM ground truth calculated in spreadsheet for toy example
self.dist = squareform([.2, .1, .8, .4, .3, .5, .7, 1., .6, .9])
self.ls_dist_truth = squareform(
[0.486582881, 0.1535182751, 0.9816843611, 0.7364028619,
0.6321205588, 0.6471339185, 0.9342714714, 0.9844961464,
0.8646647168, 0.8150186001])
self.nicdm_dist_truth = squareform(
[0.2936782173, 0.1641711143, 0.7285259947, 0.4153237178,
0.381499195, 0.3526961306, 0.5629896449, 0.7886525234,
0.5395213357, 0.4489088861])
self.vector = None
self.label = None
def test_euclidean_dist_equal_to_scipy_pdist_eucl(self):
eucl_dist = euclidean_distance(self.vectors)
eucl_dist_scipy = squareform(pdist(self.vectors, 'euclidean'))
result = np.allclose(eucl_dist, eucl_dist_scipy)
return self.assertTrue(result)
