1 files changed, 0 insertions, 95 deletions
diff --git a/simulation/mle_blocks.py b/simulation/mle_blocks.py
deleted file mode 100644
index 5acebab..0000000
--- a/simulation/mle_blocks.py
+++ /dev/null
@@ -1,95 +0,0 @@
-import main as mn
-import theano
-from theano import tensor as tsr
-import blocks
-import blocks.algorithms, blocks.main_loop, blocks.extensions.monitoring
-import theano.tensor.shared_randomstreams
-import picklable_itertools
-import numpy as np
-from six.moves import range
-import fuel
-import fuel.datasets
-import collections
-
-
-class JeaninuScheme(fuel.schemes.ShuffledScheme):
-    def get_request_iterator(self):
-        indices = list(self.indices)
-        start = np.random.randint(self.batch_size)
-        batches = list(map(
-            list,
-            picklable_itertools.extras.partition_all(self.batch_size,
-                                                     indices[start:])
-        ))
-        if indices[:start]:
-            batches.append(indices[:start])
-        batches = np.asarray(batches)
-        return iter(batches[np.random.permutation(len(batches))])
-
-
-def create_model(n_nodes):
-    x = tsr.matrix(name='x', dtype='int8')
-    s = tsr.matrix(name='s', dtype='int8')
-    params = theano.shared(
-        .5 + .01 *
-        np.random.normal(size=(n_nodes, n_nodes)).astype(theano.config.floatX),
-        name='params'
-    )
-    y = tsr.maximum(tsr.dot(x, params), 1e-5)
-    infect = tsr.log(1. - tsr.exp(-y[0:-1]))
-    lkl_pos = tsr.sum(infect * (x[1:] & s[1:]))
-    lkl_neg = tsr.sum(-y[0:-1] * (~x[1:] & s[1:]))
-    lkl_mle = lkl_pos + lkl_neg
-    lkl_mle.name = 'cost'
-    return x, s, params, lkl_mle
-
-
-def create_random_graph(n_nodes, p=.5):
-    graph = .5 * np.random.binomial(2, p=.5, size=(n_nodes, n_nodes))
-    for k in range(len(graph)):
-        graph[k, k] = 0
-    return np.log(1. / (1 - p * graph))
-
-
-def create_data_stream(n_cascades, graph, batch_size, shuffle=True):
-    """
-    shuffle (bool): shuffle minibatches but not within minibatch
-    """
-    cascades = mn.build_cascade_list(mn.simulate_cascades(n_cascades, graph),
-                                     collapse=True)
-    x_obs, s_obs = cascades[0], cascades[1]
-    data_set = fuel.datasets.base.IndexableDataset(collections.OrderedDict(
-        [('x', x_obs), ('s', s_obs)]
-    ))
-    if shuffle:
-        scheme = JeaninuScheme(len(x_obs), batch_size=batch_size)
-    else:
-        scheme = fuel.schemes.SequentialScheme(len(x_obs),
-                                               batch_size=batch_size)
-    return fuel.streams.DataStream(dataset=data_set, iteration_scheme=scheme)
-
-
-if __name__ == "__main__":
-    n_cascades = 10000
-    batch_size = 1000
-    graph = np.array([[0, 0, 1], [0, 0, 0.5], [0, 0, 0]])
-    graph = np.log(1. / (1 - .5 * graph))
-    print('GRAPH:\n', graph, '\n-------------\n')
-
-    x, s, params, cost = create_model(len(graph))
-
-    alg = blocks.algorithms.GradientDescent(
-       cost=-cost, parameters=[params], step_rule=blocks.algorithms.AdaDelta()
-    )
-    data_stream = create_data_stream(n_cascades, graph, batch_size,
-            shuffle=True)
-    loop = blocks.main_loop.MainLoop(
-        alg, data_stream,
-        extensions=[
-            blocks.extensions.FinishAfter(after_n_epochs = 1000),
-            blocks.extensions.monitoring.TrainingDataMonitoring([cost, params],
-                after_batch=True),
-            blocks.extensions.Printing()
-        ]
-    )
-    loop.run()