def setUp(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.beagleenvironment import BeagleEnvironment
from vsm.model.beaglecontext import BeagleContextSeq
from vsm.model.beagleorder import BeagleOrderSeq
from vsm.model.beaglecomposite import BeagleComposite
ec = random_corpus(1000, 50, 0, 20, context_type='sentence')
cc = ec.apply_stoplist(stoplist=[str(i) for i in range(0, 50, 7)])
e = BeagleEnvironment(ec, n_cols=5)
e.train()
cm = BeagleContextSeq(cc, ec, e.matrix)
cm.train()
om = BeagleOrderSeq(ec, e.matrix)
om.train()
m = BeagleComposite(cc, cm.matrix, ec, om.matrix)
m.train()
self.venv = BeagleViewer(ec, e)
self.vctx = BeagleViewer(cc, cm)
self.vord = BeagleViewer(ec, om)
self.vcom = BeagleViewer(cc, m)
def setUp(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.beagleenvironment import BeagleEnvironment
from vsm.model.beaglecontext import BeagleContextSeq
from vsm.model.beagleorder import BeagleOrderSeq
from vsm.model.beaglecomposite import BeagleComposite
ec = random_corpus(1000, 50, 0, 20, context_type='sentence')
cc = ec.apply_stoplist(stoplist=[str(i) for i in range(0,50,7)])
e = BeagleEnvironment(ec, n_cols=5)
e.train()
cm = BeagleContextSeq(cc, ec, e.matrix)
cm.train()
om = BeagleOrderSeq(ec, e.matrix)
om.train()
m = BeagleComposite(cc, cm.matrix, ec, om.matrix)
m.train()
self.venv = BeagleViewer(ec, e)
self.vctx = BeagleViewer(cc, cm)
self.vord = BeagleViewer(ec, om)
self.vcom = BeagleViewer(cc, m)
def test_LdaCgsMulti_eq_LdaCgsSeq_multi(self):
from tempfile import NamedTemporaryFile
import os
c = random_corpus(1000, 50, 6, 100, seed=2)
tmp = NamedTemporaryFile(delete=False, suffix='.npz')
m0 = LdaCgsMulti(c, 'document', K=10, n_proc=1, seeds=[2])
m1 = LdaCgsSeq(c, 'document', K=10, seed=2)
for iteration in range(20):
m0.train(n_iterations=2, verbose=0)
m1.train(n_iterations=2, verbose=0)
assert m0.context_type == m1.context_type
assert m0.K == m1.K
assert (m0.alpha == m1.alpha).all()
assert (m0.beta == m1.beta).all()
for i in range(max(len(m0.corpus), len(m1.corpus))):
assert m0.corpus[i].all() == m1.corpus[i].all()
assert m0.V == m1.V
assert m0.iteration == m1.iteration
assert (m0.Z[i] == m1.Z[i]).all()
assert (m0.top_doc == m1.top_doc).all()
assert (m0.word_top == m1.word_top).all()
assert m0.seeds[0] == m1.seed
assert m0._mtrand_states[0][0] == m1._mtrand_state[0]
for s0,s1 in zip(m0._mtrand_states[0][1], m1._mtrand_state[1]):
assert s0 == s1
assert m0._mtrand_states[0][2] == m1._mtrand_state[2]
assert m0._mtrand_states[0][3] == m1._mtrand_state[3]
assert m0._mtrand_states[0][4] == m1._mtrand_state[4]
print((iteration, m0.log_probs[-1], m1.log_probs[-1]))
for i in range(iteration):
assert np.isclose(m0.log_probs[i][1], m1.log_probs[i][1])
assert (np.isclose(m0.inv_top_sums, m1.inv_top_sums)).all()
def test_LdaCgsSeq_SeedTypes(self):
""" Test for issue #74 issues. """
from tempfile import NamedTemporaryFile
import os
c = random_corpus(1000, 50, 6, 100)
tmp = NamedTemporaryFile(delete=False, suffix='.npz')
try:
m0 = LdaCgsSeq(c, 'document', K=10)
m0.train(n_iterations=20)
m0.save(tmp.name)
m1 = LdaCgsSeq.load(tmp.name)
self.assertTrue(type(m0.seed) == type(m1.seed))
print("seed types:", type(m0._mtrand_state[0]),
type(m1._mtrand_state[0]))
self.assertTrue(
type(m0._mtrand_state[0]) == type(m1._mtrand_state[0]))
self.assertTrue(
type(m0._mtrand_state[1]) == type(m1._mtrand_state[1]))
self.assertTrue(
type(m0._mtrand_state[2]) == type(m1._mtrand_state[2]))
self.assertTrue(
type(m0._mtrand_state[3]) == type(m1._mtrand_state[3]))
self.assertTrue(
type(m0._mtrand_state[4]) == type(m1._mtrand_state[4]))
finally:
try:
os.remove(tmp.name)
except WindowsError:
pass
def test_LdaCgsMulti_eq_LdaCgsSeq_multi(self):
from tempfile import NamedTemporaryFile
import os
c = random_corpus(1000, 50, 6, 100, seed=2)
tmp = NamedTemporaryFile(delete=False, suffix='.npz')
m0 = LdaCgsMulti(c, 'document', K=10, n_proc=1, seeds=[2])
m1 = LdaCgsSeq(c, 'document', K=10, seed=2)
for iteration in range(20):
m0.train(n_iterations=2, verbose=0)
m1.train(n_iterations=2, verbose=0)
assert m0.context_type == m1.context_type
assert m0.K == m1.K
assert (m0.alpha == m1.alpha).all()
assert (m0.beta == m1.beta).all()
for i in xrange(max(len(m0.corpus), len(m1.corpus))):
assert m0.corpus[i].all() == m1.corpus[i].all()
assert m0.V == m1.V
assert m0.iteration == m1.iteration
assert (m0.Z[i] == m1.Z[i]).all()
assert (m0.top_doc == m1.top_doc).all()
assert (m0.word_top == m1.word_top).all()
assert m0.seeds[0] == m1.seed
assert m0._mtrand_states[0][0] == m1._mtrand_state[0]
for s0,s1 in zip(m0._mtrand_states[0][1], m1._mtrand_state[1]):
assert s0 == s1
assert m0._mtrand_states[0][2] == m1._mtrand_state[2]
assert m0._mtrand_states[0][3] == m1._mtrand_state[3]
assert m0._mtrand_states[0][4] == m1._mtrand_state[4]
print iteration, m0.log_probs[-1], m1.log_probs[-1]
for i in range(iteration):
assert np.isclose(m0.log_probs[i][1], m1.log_probs[i][1])
assert (np.isclose(m0.inv_top_sums, m1.inv_top_sums)).all()
def test_apply_stoplist(self):
from vsm.corpus.util.corpusbuilders import random_corpus, corpus_fromlist
c = random_corpus(1000,
50,
0,
20,
context_type='sentence',
metadata=True)
new_c = apply_stoplist(c,
nltk_stop=False,
add_stop=['0', '1'],
freq=0,
in_place=False)
li = [[], ['he', 'said'], ['he', 'said', 'bar'], ['bar', 'ate'],
['I', 'foo']]
wc = corpus_fromlist(li, context_type='sentence')
new_wc = apply_stoplist(wc, nltk_stop=True, freq=1, in_place=False)
self.assertTrue('0' in c.words)
self.assertTrue('1' in c.words)
self.assertFalse('0' in new_c.words)
self.assertFalse('1' in new_c.words)
self.assertTrue('said' in new_wc.words)
self.assertTrue('bar' in new_wc.words)
self.assertFalse('he' in new_wc.words)
self.assertFalse('foo' in new_wc.words)
self.assertFalse('ate' in new_wc.words)
def test_LdaCgsSeq_SeedTypes(self):
""" Test for issue #74 issues. """
from tempfile import NamedTemporaryFile
import os
c = random_corpus(1000, 50, 6, 100)
tmp = NamedTemporaryFile(delete=False, suffix='.npz')
try:
m0 = LdaCgsSeq(c, 'document', K=10)
m0.train(n_iterations=20)
m0.save(tmp.name)
m1 = LdaCgsSeq.load(tmp.name)
self.assertTrue(type(m0.seed) == type(m1.seed))
print("seed types:", type(m0._mtrand_state[0]), type(m1._mtrand_state[0]))
self.assertTrue(type(m0._mtrand_state[0]) == type(m1._mtrand_state[0]))
self.assertTrue(type(m0._mtrand_state[1]) == type(m1._mtrand_state[1]))
self.assertTrue(type(m0._mtrand_state[2]) == type(m1._mtrand_state[2]))
self.assertTrue(type(m0._mtrand_state[3]) == type(m1._mtrand_state[3]))
self.assertTrue(type(m0._mtrand_state[4]) == type(m1._mtrand_state[4]))
finally:
try:
os.remove(tmp.name)
except WindowsError:
pass
def test_LdaCgsMulti_phi(self):
c = random_corpus(1000, 50, 6, 100)
m0 = LdaCgsMulti(c, 'document', K=10)
m0.train(n_iterations=20)
phi = m0.word_top / m0.word_top.sum(0)
assert (phi.sum(axis=0) == 1.0).all()
assert phi.sum() == 10.0
def test_LdaCgsMulti_theta(self):
c = random_corpus(1000, 50, 6, 100)
m0 = LdaCgsMulti(c, 'document', K=10)
m0.train(n_iterations=20)
theta = self.model.top_doc / self.model.top_doc.sum(0)
assert (theta.sum(axis=0) == 1.0).all()
assert theta.sum() == theta.shape[1]
def test_LdaCgsMulti_phi(self):
c = random_corpus(1000, 50, 6, 100)
m0 = LdaCgsMulti(c, 'document', K=10)
m0.train(n_iterations=20)
phi = m0.word_top / m0.word_top.sum(0)
assert (phi.sum(axis=0) == 1.0).all()
assert phi.sum() == 10.0
def test_LdaCgsMulti_theta(self):
c = random_corpus(1000, 50, 6, 100)
m0 = LdaCgsMulti(c, 'document', K=10)
m0.train(n_iterations=20)
theta = self.model.top_doc / self.model.top_doc.sum(0)
assert (theta.sum(axis=0) == 1.0).all()
assert theta.sum() == theta.shape[1]
def test_LdaCgsMulti_remove_Seq_props(self):
from vsm.corpus.util.corpusbuilders import random_corpus
c = random_corpus(1000, 50, 0, 20, context_type='document',
metadata=True)
m0 = LdaCgsMulti(c, 'document', K=10)
assert getattr(m0, 'seed', None) is None
assert getattr(m0, '_mtrand_state', None) is None
def test_LdaCgsMulti_remove_Seq_props(self):
from vsm.corpus.util.corpusbuilders import random_corpus
c = random_corpus(1000, 50, 0, 20, context_type='document',
metadata=True)
m0 = LdaCgsMulti(c, 'document', K=10)
assert getattr(m0, 'seed', None) is None
assert getattr(m0, '_mtrand_state', None) is None
def test_add_metadata(self):
from vsm.corpus.util.corpusbuilders import random_corpus
c = random_corpus(1000, 50, 0, 20, context_type='sentence', metadata=True)
n = c.view_metadata('sentence').size
meta = ['m_{0}'.format(i) for i in range(n)]
new_c = add_metadata(c, 'sentence', 'new_meta', meta)
self.assertEqual(new_c.view_metadata('sentence')['new_meta'].tolist(), meta)
def setUp(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.tf import TfSeq
c = random_corpus(1000, 50, 0, 20, context_type='document', metadata=True)
m = TfSeq(c, 'document')
m.train()
self.v = TfViewer(c, m)
def setUp(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.ldacgsseq import LdaCgsSeq
c = random_corpus(1000, 50, 0, 20, context_type='document',
metadata=True)
m = LdaCgsSeq(c, 'document', K=10)
m.train(n_iterations=50, verbose=0)
self.ldav = LdaCgsViewer(c, m)
def setUp(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.beagleenvironment import BeagleEnvironment
self.c = random_corpus(1000, 50, 0, 10, context_type='sentence')
self.e = BeagleEnvironment(self.c, n_cols=100)
self.e.train()
self.ms = BeagleOrderSeq(self.c, self.e.matrix)
self.ms.train()
'''
def setUp(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.beagleenvironment import BeagleEnvironment
self.c = random_corpus(1000, 50, 0, 10, context_type='sentence')
self.e = BeagleEnvironment(self.c, n_cols=100)
self.e.train()
self.ms = BeagleOrderSeq(self.c, self.e.matrix)
self.ms.train()
'''
def test_IndexedSymmArray(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.ldacgsseq import LdaCgsSeq
from vsm.viewer.ldacgsviewer import LdaCgsViewer
c = random_corpus(50000, 1000, 0, 50)
m = LdaCgsSeq(c, 'document', K=20)
viewer = LdaCgsViewer(c, m)
li = [0, 1, 10]
isa = viewer.dismat_top(li)
self.assertEqual(isa.shape[0], len(li))
def test_IndexedSymmArray(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.ldacgsseq import LdaCgsSeq
from vsm.viewer.ldacgsviewer import LdaCgsViewer
c = random_corpus(50000, 1000, 0, 50)
m = LdaCgsSeq(c, 'document', K=20)
viewer = LdaCgsViewer(c, m)
li = ['0', '1', '10']
isa = viewer.dismat_top(li)
self.assertEqual(isa.shape[0], len(li))
def setUp(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.beaglecontext import BeagleContextSeq, BeagleContextMulti
from vsm.model.beagleenvironment import BeagleEnvironment
self.ec = random_corpus(1000, 50, 0, 5, context_type='sentence')
self.cc = self.ec.apply_stoplist(stoplist=[str(i) for i in xrange(0,50,7)])
self.e = BeagleEnvironment(self.ec, n_cols=5)
self.e.train()
self.ms = BeagleContextSeq(self.cc, self.ec, self.e.matrix)
self.ms.train()
'''
def test_BaseModel_IO(self):
from tempfile import NamedTemporaryFile as NTF
import os
c = random_corpus(1000, 50, 6, 100)
with NTF(delete=False, suffix='.npz') as tmp:
m0 = BaseModel(c.corpus, 'context')
m0.save(tmp.name)
m1 = BaseModel.load(tmp.name)
self.assertEqual(m0.context_type, m1.context_type)
self.assertTrue((m0.matrix == m1.matrix).all())
os.remove(tmp.name)
def setUp(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.tf import TfSeq
from vsm.model.tfidf import TfIdf
c = random_corpus(1000, 50, 0, 10, context_type='document', metadata=True)
tf = TfSeq(c, 'document')
tf.train()
m = TfIdf.from_tf(tf)
m.train()
self.v = TfIdfViewer(c, m)
def setUp(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.beaglecontext import BeagleContextSeq, BeagleContextMulti
from vsm.model.beagleenvironment import BeagleEnvironment
self.ec = random_corpus(1000, 50, 0, 5, context_type='sentence')
self.cc = self.ec.apply_stoplist(
stoplist=[str(i) for i in range(0, 50, 7)])
self.e = BeagleEnvironment(self.ec, n_cols=5)
self.e.train()
self.ms = BeagleContextSeq(self.cc, self.ec, self.e.matrix)
self.ms.train()
'''
def test_BaseModel_IO(self):
from tempfile import NamedTemporaryFile as NTF
import os
c = random_corpus(1000, 50, 6, 100)
with NTF(delete=False, suffix='.npz') as tmp:
m0 = BaseModel(c.corpus, 'context')
m0.save(tmp.name)
m1 = BaseModel.load(tmp.name)
self.assertEqual(m0.context_type, m1.context_type)
self.assertTrue((m0.matrix == m1.matrix).all())
os.remove(tmp.name)
def test_theta_and_phi(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.ldacgsseq import LdaCgsSeq
c = random_corpus(1000, 50, 0, 20, context_type='document',
metadata=True)
m0 = LdaCgsSeq(c, 'document', K=10)
m0.train(n_iterations=50, verbose=0)
phi = m0.word_top / m0.word_top.sum(0)
assert (phi.sum(axis=0).astype('float16') == 1.0).all()
assert phi.sum(dtype='float16') == 10.0
theta = m0.top_doc / m0.top_doc.sum(0)
assert (theta.sum(axis=0).astype('float16') == 1.0).all()
assert theta.sum().astype('float16') == theta.shape[1]
def setUp(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.tf import TfSeq
c = random_corpus(1000,
50,
0,
20,
context_type='document',
metadata=True)
m = TfSeq(c, 'document')
m.train()
self.v = TfViewer(c, m)
def test_add_metadata(self):
from vsm.corpus.util.corpusbuilders import random_corpus
c = random_corpus(1000,
50,
0,
20,
context_type='sentence',
metadata=True)
n = c.view_metadata('sentence').size
meta = ['m_{0}'.format(i) for i in range(n)]
new_c = add_metadata(c, 'sentence', 'new_meta', meta)
self.assertEqual(
new_c.view_metadata('sentence')['new_meta'].tolist(), meta)
def test_LdaCgsMulti_continue_training(self):
from vsm.corpus.util.corpusbuilders import random_corpus
c = random_corpus(1000,
50,
0,
20,
context_type='document',
metadata=True)
m0 = LdaCgsMulti(c, 'document', K=10)
assert m0.seeds is not None
orig_seeds = m0.seeds
m1 = LdaCgsMulti(c, 'document', K=10, seeds=orig_seeds)
assert m0.seeds == m1.seeds
m0.train(n_iterations=2, verbose=0)
m1.train(n_iterations=5, verbose=0)
assert m0.seeds == orig_seeds
assert m1.seeds == orig_seeds
for s0, s1 in zip(m0._mtrand_states, m1._mtrand_states):
assert (s0[1] != s1[1]).any()
assert s0[2:] != s1[2:]
m0.train(n_iterations=3, verbose=0)
# ref:http://docs.scipy.org/doc/numpy/reference/generated/numpy.random.RandomState.get_state.html
for s0, s1 in zip(m0._mtrand_states, m1._mtrand_states):
assert s0[0] == 'MT19937'
assert s1[0] == 'MT19937'
assert (s0[1] == s1[1]).all()
assert s0[2:] == s1[2:]
assert m0.context_type == m1.context_type
assert m0.K == m1.K
assert (m0.alpha == m1.alpha).all()
assert (m0.beta == m1.beta).all()
assert m0.log_probs == m1.log_probs
for i in range(max(len(m0.corpus), len(m1.corpus))):
assert m0.corpus[i].all() == m1.corpus[i].all()
assert m0.V == m1.V
assert m0.iteration == m1.iteration
for i in range(max(len(m0.Z), len(m1.Z))):
assert m0.Z[i].all() == m1.Z[i].all()
assert m0.top_doc.all() == m1.top_doc.all()
assert m0.word_top.all() == m1.word_top.all()
assert m0.inv_top_sums.all() == m1.inv_top_sums.all()
def test_continueTraining(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.ldacgsseq import LdaCgsSeq
c = random_corpus(1000,
50,
0,
20,
context_type='document',
metadata=True)
m0 = LdaCgsSeq(c, 'document', K=10)
assert m0.seed is not None
orig_seed = m0.seed
m1 = LdaCgsSeq(c, 'document', K=10, seed=orig_seed)
assert m0.seed == m1.seed
m0.train(n_iterations=2, verbose=0)
m1.train(n_iterations=5, verbose=0)
assert m0.seed == orig_seed
assert m1.seed == orig_seed
assert (m0._mtrand_state[1] != m1._mtrand_state[1]).any()
assert m0._mtrand_state[2:] != m1._mtrand_state[2:]
m0.train(n_iterations=3, verbose=0)
# ref:http://docs.scipy.org/doc/numpy/reference/generated/numpy.random.RandomState.get_state.html
assert m0._mtrand_state[0] == 'MT19937'
assert m1._mtrand_state[0] == 'MT19937'
assert (m0._mtrand_state[1] == m1._mtrand_state[1]).all()
assert m0._mtrand_state[2:] == m1._mtrand_state[2:]
self.assertTrue(m0.context_type == m1.context_type)
self.assertTrue(m0.K == m1.K)
self.assertTrue((m0.alpha == m1.alpha).all())
self.assertTrue((m0.beta == m1.beta).all())
self.assertTrue(m0.log_probs == m1.log_probs)
for i in range(max(len(m0.corpus), len(m1.corpus))):
self.assertTrue(m0.corpus[i].all() == m1.corpus[i].all())
self.assertTrue(m0.V == m1.V)
self.assertTrue(m0.iteration == m1.iteration)
for i in range(max(len(m0.Z), len(m1.Z))):
self.assertTrue(m0.Z[i].all() == m1.Z[i].all())
self.assertTrue(m0.top_doc.all() == m1.top_doc.all())
self.assertTrue(m0.word_top.all() == m1.word_top.all())
self.assertTrue(m0.inv_top_sums.all() == m1.inv_top_sums.all())
def test_training_changes_something(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.ldacgsseq import LdaCgsSeq
c = random_corpus(1000, 50, 0, 20, context_type='document',
metadata=True)
m0 = LdaCgsSeq(c, 'document', K=10)
m1 = LdaCgsSeq(c, 'document', K=10, seed=m0.seed)
m0.train(n_iterations=1, verbose=0)
m1.train(n_iterations=2, verbose=0)
assert not (m0.Z == m1.Z).all()
assert not (m0.word_top == m1.word_top).all()
assert not (m0.inv_top_sums == m1.inv_top_sums).all()
assert not (m0.top_doc == m1.top_doc).all()
def test_LdaCgsSeq_IO(self):
from tempfile import NamedTemporaryFile
import os
c = random_corpus(1000, 50, 6, 100)
tmp = NamedTemporaryFile(delete=False, suffix='.npz')
try:
m0 = LdaCgsSeq(c, 'document', K=10)
m0.train(n_iterations=20)
m0.save(tmp.name)
m1 = LdaCgsSeq.load(tmp.name)
self.assertTrue(m0.context_type == m1.context_type)
self.assertTrue(m0.K == m1.K)
self.assertTrue((m0.alpha == m1.alpha).all())
self.assertTrue((m0.beta == m1.beta).all())
self.assertTrue(m0.log_probs == m1.log_probs)
for i in range(max(len(m0.corpus), len(m1.corpus))):
self.assertTrue(m0.corpus[i].all() == m1.corpus[i].all())
self.assertTrue(m0.V == m1.V)
self.assertTrue(m0.iteration == m1.iteration)
for i in range(max(len(m0.Z), len(m1.Z))):
self.assertTrue(m0.Z[i].all() == m1.Z[i].all())
self.assertTrue(m0.top_doc.all() == m1.top_doc.all())
self.assertTrue(m0.word_top.all() == m1.word_top.all())
self.assertTrue(m0.inv_top_sums.all() == m1.inv_top_sums.all())
self.assertTrue(m0.seed == m1.seed)
self.assertTrue(m0._mtrand_state[0] == m1._mtrand_state[0])
self.assertTrue((m0._mtrand_state[1] == m1._mtrand_state[1]).all())
for s1,s2 in zip(m0._mtrand_state[2:], m1._mtrand_state[2:]):
self.assertTrue(s1 == s2)
m0 = LdaCgsSeq(c, 'document', K=10)
m0.train(n_iterations=20)
m0.save(tmp.name)
m1 = LdaCgsSeq.load(tmp.name)
self.assertTrue(not hasattr(m1, 'log_prob'))
finally:
try:
os.remove(tmp.name)
except WindowsError:
pass
def test_LdaCgsMulti_continue_training(self):
from vsm.corpus.util.corpusbuilders import random_corpus
c = random_corpus(1000, 50, 0, 20, context_type='document',
metadata=True)
m0 = LdaCgsMulti(c, 'document', K=10)
assert m0.seeds is not None
orig_seeds = m0.seeds
m1 = LdaCgsMulti(c, 'document', K=10, seeds=orig_seeds)
assert m0.seeds == m1.seeds
m0.train(n_iterations=2, verbose=0)
m1.train(n_iterations=5, verbose=0)
assert m0.seeds == orig_seeds
assert m1.seeds == orig_seeds
for s0, s1 in zip(m0._mtrand_states,m1._mtrand_states):
assert (s0[1] != s1[1]).any()
assert s0[2:] != s1[2:]
m0.train(n_iterations=3, verbose=0)
# ref:http://docs.scipy.org/doc/numpy/reference/generated/numpy.random.RandomState.get_state.html
for s0, s1 in zip(m0._mtrand_states,m1._mtrand_states):
assert s0[0] == 'MT19937'
assert s1[0] == 'MT19937'
assert (s0[1] == s1[1]).all()
assert s0[2:] == s1[2:]
assert m0.context_type == m1.context_type
assert m0.K == m1.K
assert (m0.alpha == m1.alpha).all()
assert (m0.beta == m1.beta).all()
assert m0.log_probs == m1.log_probs
for i in range(max(len(m0.corpus), len(m1.corpus))):
assert m0.corpus[i].all() == m1.corpus[i].all()
assert m0.V == m1.V
assert m0.iteration == m1.iteration
for i in range(max(len(m0.Z), len(m1.Z))):
assert m0.Z[i].all() == m1.Z[i].all()
assert m0.top_doc.all() == m1.top_doc.all()
assert m0.word_top.all() == m1.word_top.all()
assert m0.inv_top_sums.all() == m1.inv_top_sums.all()
def test_continueTraining(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.ldacgsseq import LdaCgsSeq
c = random_corpus(1000, 50, 0, 20, context_type='document',
metadata=True)
m0 = LdaCgsSeq(c, 'document', K=10)
assert m0.seed is not None
orig_seed = m0.seed
m1 = LdaCgsSeq(c, 'document', K=10, seed=orig_seed)
assert m0.seed == m1.seed
m0.train(n_iterations=2, verbose=0)
m1.train(n_iterations=5, verbose=0)
assert m0.seed == orig_seed
assert m1.seed == orig_seed
assert (m0._mtrand_state[1] != m1._mtrand_state[1]).any()
assert m0._mtrand_state[2:] != m1._mtrand_state[2:]
m0.train(n_iterations=3, verbose=0)
# ref:http://docs.scipy.org/doc/numpy/reference/generated/numpy.random.RandomState.get_state.html
assert m0._mtrand_state[0] == 'MT19937'
assert m1._mtrand_state[0] == 'MT19937'
assert (m0._mtrand_state[1] == m1._mtrand_state[1]).all()
assert m0._mtrand_state[2:] == m1._mtrand_state[2:]
self.assertTrue(m0.context_type == m1.context_type)
self.assertTrue(m0.K == m1.K)
self.assertTrue((m0.alpha == m1.alpha).all())
self.assertTrue((m0.beta == m1.beta).all())
self.assertTrue(m0.log_probs == m1.log_probs)
for i in xrange(max(len(m0.corpus), len(m1.corpus))):
self.assertTrue(m0.corpus[i].all() == m1.corpus[i].all())
self.assertTrue(m0.V == m1.V)
self.assertTrue(m0.iteration == m1.iteration)
for i in xrange(max(len(m0.Z), len(m1.Z))):
self.assertTrue(m0.Z[i].all() == m1.Z[i].all())
self.assertTrue(m0.top_doc.all() == m1.top_doc.all())
self.assertTrue(m0.word_top.all() == m1.word_top.all())
self.assertTrue(m0.inv_top_sums.all() == m1.inv_top_sums.all())
def test_LdaCgsSeq_IO(self):
from tempfile import NamedTemporaryFile
import os
c = random_corpus(1000, 50, 6, 100)
tmp = NamedTemporaryFile(delete=False, suffix='.npz')
try:
m0 = LdaCgsSeq(c, 'document', K=10)
m0.train(n_iterations=20)
m0.save(tmp.name)
m1 = LdaCgsSeq.load(tmp.name)
self.assertTrue(m0.context_type == m1.context_type)
self.assertTrue(m0.K == m1.K)
self.assertTrue((m0.alpha == m1.alpha).all())
self.assertTrue((m0.beta == m1.beta).all())
self.assertTrue(m0.log_probs == m1.log_probs)
for i in range(max(len(m0.corpus), len(m1.corpus))):
self.assertTrue(m0.corpus[i].all() == m1.corpus[i].all())
self.assertTrue(m0.V == m1.V)
self.assertTrue(m0.iteration == m1.iteration)
for i in range(max(len(m0.Z), len(m1.Z))):
self.assertTrue(m0.Z[i].all() == m1.Z[i].all())
self.assertTrue(m0.top_doc.all() == m1.top_doc.all())
self.assertTrue(m0.word_top.all() == m1.word_top.all())
self.assertTrue(m0.inv_top_sums.all() == m1.inv_top_sums.all())
self.assertTrue(m0.seed == m1.seed)
self.assertTrue(m0._mtrand_state[0] == m1._mtrand_state[0])
self.assertTrue((m0._mtrand_state[1] == m1._mtrand_state[1]).all())
for s1, s2 in zip(m0._mtrand_state[2:], m1._mtrand_state[2:]):
self.assertTrue(s1 == s2)
m0 = LdaCgsSeq(c, 'document', K=10)
m0.train(n_iterations=20)
m0.save(tmp.name)
m1 = LdaCgsSeq.load(tmp.name)
self.assertTrue(not hasattr(m1, 'log_prob'))
finally:
try:
os.remove(tmp.name)
except WindowsError:
pass
def test_theta_and_phi(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.ldacgsseq import LdaCgsSeq
c = random_corpus(1000,
50,
0,
20,
context_type='document',
metadata=True)
m0 = LdaCgsSeq(c, 'document', K=10)
m0.train(n_iterations=50, verbose=0)
phi = m0.word_top / m0.word_top.sum(0)
assert (phi.sum(axis=0).astype('float16') == 1.0).all()
assert phi.sum(dtype='float16') == 10.0
theta = m0.top_doc / m0.top_doc.sum(0)
assert (theta.sum(axis=0).astype('float16') == 1.0).all()
assert theta.sum().astype('float16') == theta.shape[1]
def setUp(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.beaglecomposite import BeagleComposite
from vsm.model.beagleenvironment import BeagleEnvironment
from vsm.model.beaglecontext import BeagleContextSeq
from vsm.model.beagleorder import BeagleOrderSeq
self.ec = random_corpus(1000, 50, 0, 20, context_type='sentence')
self.cc = self.ec.apply_stoplist(stoplist=[str(i) for i in xrange(0,50,7)])
self.e = BeagleEnvironment(self.ec, n_cols=5)
self.e.train()
self.cm = BeagleContextSeq(self.cc, self.ec, self.e.matrix)
self.cm.train()
self.om = BeagleOrderSeq(self.ec, self.e.matrix)
self.om.train()
self.m = BeagleComposite(self.cc, self.cm.matrix, self.ec, self.om.matrix)
self.m.train()
def test_apply_stoplist(self):
from vsm.corpus.util.corpusbuilders import random_corpus, corpus_fromlist
c = random_corpus(1000, 50, 0, 20, context_type='sentence', metadata=True)
new_c = apply_stoplist(c, nltk_stop=False, add_stop=['0','1'], freq=0)
li = [[],['he','said'],['he','said','bar'],['bar','ate'],['I','foo']]
wc = corpus_fromlist(li, context_type='sentence')
new_wc = apply_stoplist(wc, nltk_stop=True, freq=1)
self.assertTrue('0' in c.words)
self.assertTrue('1' in c.words)
self.assertFalse('0' in new_c.words)
self.assertFalse('1' in new_c.words)
self.assertTrue('said' in new_wc.words)
self.assertTrue('bar' in new_wc.words)
self.assertFalse('he' in new_wc.words)
self.assertFalse('foo' in new_wc.words)
self.assertFalse('ate' in new_wc.words)
def test_LdaCgsMulti_SeedTypes(self):
""" Test for issue #74 issues. """
from tempfile import NamedTemporaryFile
import os
c = random_corpus(1000, 50, 6, 100)
tmp = NamedTemporaryFile(delete=False, suffix='.npz')
try:
m0 = LdaCgsMulti(c, 'document', K=10)
m0.train(n_iterations=20)
m0.save(tmp.name)
m1 = LdaCgsMulti.load(tmp.name)
for s0, s1 in zip(m0.seeds, m1.seeds):
assert type(s0) == type(s1)
for s0, s1 in zip(m0._mtrand_states, m1._mtrand_states):
for i in range(5):
assert type(s0[i]) == type(s1[i])
finally:
os.remove(tmp.name)
def test_LdaCgsMulti_SeedTypes(self):
""" Test for issue #74 issues. """
from tempfile import NamedTemporaryFile
import os
c = random_corpus(1000, 50, 6, 100)
tmp = NamedTemporaryFile(delete=False, suffix='.npz')
try:
m0 = LdaCgsMulti(c, 'document', K=10)
m0.train(n_iterations=20)
m0.save(tmp.name)
m1 = LdaCgsMulti.load(tmp.name)
for s0, s1 in zip(m0.seeds, m1.seeds):
assert type(s0) == type(s1)
for s0, s1 in zip(m0._mtrand_states,m1._mtrand_states):
for i in range(5):
assert type(s0[i]) == type(s1[i])
finally:
os.remove(tmp.name)
def test_training_changes_something(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.ldacgsseq import LdaCgsSeq
c = random_corpus(1000,
50,
0,
20,
context_type='document',
metadata=True)
m0 = LdaCgsSeq(c, 'document', K=10)
m1 = LdaCgsSeq(c, 'document', K=10, seed=m0.seed)
m0.train(n_iterations=1, verbose=0)
m1.train(n_iterations=2, verbose=0)
assert not (m0.Z == m1.Z).all()
assert not (m0.word_top == m1.word_top).all()
assert not (m0.inv_top_sums == m1.inv_top_sums).all()
assert not (m0.top_doc == m1.top_doc).all()
def test_LdaCgsMulti_IO(self):
from tempfile import NamedTemporaryFile
import os
c = random_corpus(1000, 50, 6, 100)
tmp = NamedTemporaryFile(delete=False, suffix='.npz')
try:
m0 = LdaCgsMulti(c, 'document', K=10)
m0.train(n_iterations=20)
m0.save(tmp.name)
m1 = LdaCgsMulti.load(tmp.name)
assert m0.context_type == m1.context_type
assert m0.K == m1.K
assert (m0.alpha == m1.alpha).all()
assert (m0.beta == m1.beta).all()
assert m0.log_probs == m1.log_probs
for i in range(max(len(m0.corpus), len(m1.corpus))):
assert m0.corpus[i].all() == m1.corpus[i].all()
assert m0.V == m1.V
assert m0.iteration == m1.iteration
for i in range(max(len(m0.Z), len(m1.Z))):
assert m0.Z[i].all() == m1.Z[i].all()
assert m0.top_doc.all() == m1.top_doc.all()
assert m0.word_top.all() == m1.word_top.all()
assert m0.inv_top_sums.all() == m1.inv_top_sums.all()
assert m0.seeds == m1.seeds
for s0, s1 in zip(m0._mtrand_states, m1._mtrand_states):
assert s0[0] == s1[0]
assert (s0[1] == s1[1]).all()
assert s0[2:] == s1[2:]
m0 = LdaCgsMulti(c, 'document', K=10)
m0.train(n_iterations=20)
m0.save(tmp.name)
m1 = LdaCgsMulti.load(tmp.name)
assert not hasattr(m1, 'log_prob')
finally:
os.remove(tmp.name)
def test_LdaCgsMulti_IO(self):
from tempfile import NamedTemporaryFile
import os
c = random_corpus(1000, 50, 6, 100)
tmp = NamedTemporaryFile(delete=False, suffix='.npz')
try:
m0 = LdaCgsMulti(c, 'document', K=10)
m0.train(n_iterations=20)
m0.save(tmp.name)
m1 = LdaCgsMulti.load(tmp.name)
assert m0.context_type == m1.context_type
assert m0.K == m1.K
assert (m0.alpha == m1.alpha).all()
assert (m0.beta == m1.beta).all()
assert m0.log_probs == m1.log_probs
for i in range(max(len(m0.corpus), len(m1.corpus))):
assert m0.corpus[i].all() == m1.corpus[i].all()
assert m0.V == m1.V
assert m0.iteration == m1.iteration
for i in range(max(len(m0.Z), len(m1.Z))):
assert m0.Z[i].all() == m1.Z[i].all()
assert m0.top_doc.all() == m1.top_doc.all()
assert m0.word_top.all() == m1.word_top.all()
assert m0.inv_top_sums.all() == m1.inv_top_sums.all()
assert m0.seeds == m1.seeds
for s0, s1 in zip(m0._mtrand_states,m1._mtrand_states):
assert s0[0] == s1[0]
assert (s0[1] == s1[1]).all()
assert s0[2:] == s1[2:]
m0 = LdaCgsMulti(c, 'document', K=10)
m0.train(n_iterations=20)
m0.save(tmp.name)
m1 = LdaCgsMulti.load(tmp.name)
assert not hasattr(m1, 'log_prob')
finally:
os.remove(tmp.name)
def setUp(self):
from vsm.corpus.util.corpusbuilders import random_corpus
from vsm.model.beaglecomposite import BeagleComposite
from vsm.model.beagleenvironment import BeagleEnvironment
from vsm.model.beaglecontext import BeagleContextSeq
from vsm.model.beagleorder import BeagleOrderSeq
self.ec = random_corpus(1000, 50, 0, 20, context_type='sentence')
self.cc = self.ec.apply_stoplist(
stoplist=[str(i) for i in range(0, 50, 7)])
self.e = BeagleEnvironment(self.ec, n_cols=5)
self.e.train()
self.cm = BeagleContextSeq(self.cc, self.ec, self.e.matrix)
self.cm.train()
self.om = BeagleOrderSeq(self.ec, self.e.matrix)
self.om.train()
self.m = BeagleComposite(self.cc, self.cm.matrix, self.ec,
self.om.matrix)
self.m.train()
def setUp(self):
self.c = random_corpus(1000, 50, 6, 100)
self.m = BaseModel(self.c, 'context')
def setUp(self):
self.c = random_corpus(1000, 50, 6, 100)
self.m = BaseModel(self.c, 'context')
