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n_train_batches = train_set_x.get_value(borrow=True).shape[0] / batch_size
n_valid_batches = valid_set_x.get_value(borrow=True).shape[0] / batch_size
n_test_batches = test_set_x.get_value(borrow=True).shape[0] / batch_size
should be:
n_train_batches = train_set_x.get_value(borrow=True).shape[0] / batch_size + 1
n_valid_batches = valid_set_x.get_value(borrow=True).shape[0] / batch_size + 1
n_test_batches = test_set_x.get_value(borrow=True).shape[0] / batch_size + 1
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