Python tensor.dmatrices函数代码示例

    def build_ann(self, weights, biases, layer_sizes=[784, 400, 10],
                  activation=[Tann.sigmoid, Tann.sigmoid, Tann.sigmoid]):
        """
        Builds a neural network with topology from the layer_sizes.
        :parameter activation is the activation function for the network
        :parameter rand_limit_min is the minimum limit for random initialization of weights for all layers
        :parameter rand_limit_max is the maximum limit for random initialization of weights for all layers
        """
        params = []
        inputs, answers = T.dmatrices('input', 'answers')
        assert len(layer_sizes) >= 2

        # Builds the layers
        for i in range(len(layer_sizes) - 1):
            layer = HiddenLayer(inputs, layer_sizes[i], layer_sizes[i + 1], weights[i], biases[i],
                                activation=activation[i])
            params.append(layer.W)
            params.append(layer.b)
            self.layers.append(layer)

        # Sets up the activation functions through the network
        layer = self.layers[0]
        previous_out = layer.activation(T.dot(layer.input, layer.W) + layer.b)
        x_h_out = layer.activation(T.dot(layer.input, layer.W) + layer.b)
        for i in range(len(self.layers) - 1):
            layer = self.layers[i + 1]
            x_h_out = layer.activation(T.dot(previous_out, layer.W) + layer.b)
            previous_out = x_h_out
        self.predictor = theano.function([inputs], [x_h_out])  # Activate

 def build_ann(self, layer_sizes=[784, 24, 10], activation=Tann.sigmoid, rand_limit_min=-.1, rand_limit_max=.1):
     """
     Builds a neural network with topology from the layer_sizes.
     :parameter activation is the activation function for the network
     :parameter rand_limit_min is the minimum limit for random initialization of weights for all layers
     :parameter rand_limit_max is the maximum limit for random initialization of weights for all layers
     """
     params = []
     inputs, answers = T.dmatrices('input', 'answers')
     assert len(layer_sizes) >= 2
     for i in range(len(layer_sizes) - 1):
         layer = HiddenLayer(inputs, layer_sizes[i], layer_sizes[i + 1], activation=activation, rand_limit_min=rand_limit_min, rand_limit_max=rand_limit_max)
         # outputs.append(layer.output)
         params.append(layer.W)
         params.append(layer.b)
         self.layers.append(layer)
     previous_out = self.layers[0].output
     x_h_out = self.layers[0].output
     for i in range(len(self.layers)-1):
         layer = self.layers[i+1]
         x_h_out = Tann.sigmoid(T.dot(previous_out, layer.W) + layer.b)
         previous_out = x_h_out
     error = T.sum((answers - x_h_out) ** 2)
     gradients = T.grad(error, params)
     backprop_acts = [(p, p - self.lrate * g) for p, g in zip(params, gradients)]
     self.predictor = theano.function([inputs], [x_h_out])
     self.trainer = theano.function([inputs, answers], error, updates=backprop_acts)

    def createGradientFunctions(self):
        #create
        X = T.dmatrices("X")
        mu, logSigma, u, v, f, R = T.dcols("mu", "logSigma", "u", "v", "f", "R")
        mu = sharedX( np.random.normal(10, 10, (self.dimTheta, 1)), name='mu') 
        logSigma = sharedX(np.random.uniform(0, 4, (self.dimTheta, 1)), name='logSigma')
        logLambd = sharedX(np.matrix(np.random.uniform(0, 10)),name='logLambd')
        logLambd = T.patternbroadcast(T.dmatrix("logLambd"),[1,1])
        negKL = 0.5 * T.sum(1 + 2*logSigma - mu ** 2 - T.exp(logSigma) ** 2)
        theta = mu+T.exp(logSigma)*v
        W=theta
        y=X[:,0]
        X_sim=X[:,1:]
        f = (T.dot(X_sim,W)+u).flatten()
        
        gradvariables = [mu, logSigma, logLambd]
        
        
        logLike = T.sum(-(0.5 * np.log(2 * np.pi) + logLambd) - 0.5 * ((y-f)/(T.exp(logLambd)))**2)

        logp = (negKL + logLike)/self.m

        optimizer = -logp
        
        self.negKL = th.function([mu, logSigma], negKL, on_unused_input='ignore')
        self.f = th.function(gradvariables + [X,u,v], f, on_unused_input='ignore')
        self.logLike = th.function(gradvariables + [X, u, v], logLike,on_unused_input='ignore')
        derivatives = T.grad(logp,gradvariables)
        derivatives.append(logp)

        self.gradientfunction = th.function(gradvariables + [X, u, v], derivatives, on_unused_input='ignore')
        self.lowerboundfunction = th.function(gradvariables + [X, u, v], logp, on_unused_input='ignore')

        self.optimizer = BatchGradientDescent(objective=optimizer, params=gradvariables,inputs = [X,u,v],conjugate=True,max_iter=1)

 def __init__(self, n_x, n_h, n_y, lr=0, nonlinear='softplus', valid_x=None, valid_y=None):
     print 'PL', n_x, n_h, n_y, lr, nonlinear
     if lr == 0: lr = 10. / n_h
     self.lr = lr
     self.fitted = False
     self.n_x = n_x
     self.n_h = n_h
     self.n_y = n_y
     self.nonlinear = nonlinear
     self.valid_x = valid_x
     self.valid_y = valid_y
     
     if self.nonlinear == 'softplus':
         def g(_x): return T.log(T.exp(_x) + 1)
     else:
         raise Exception()
     
     # Define Theano computational graph
     x, y, w1, b1, w2, b2, A = T.dmatrices('x', 'y', 'w1', 'b1', 'w2', 'b2', 'A')
     h1 = g(T.dot(w1, x) + T.dot(b1, A))
     h2 = g(T.dot(w2, h1) + T.dot(b2, A))
     p = T.nnet.softmax(h2.T).T
     logpy = (- T.nnet.categorical_crossentropy(p.T, y.T).T).reshape((1,-1))
     dlogpy_dw = T.grad(logpy.sum(), [w1, b1, w2, b2])
     H = T.nnet.categorical_crossentropy(p.T, p.T).T #entropy
     dH_dw = T.grad(H.sum(), [w1, b1, w2, b2])
     
     # Define functions to call
     self.f_p = theano.function([x, w1, b1, w2, b2, A], p)
     self.f_dlogpy_dw = theano.function([x, y, w1, b1, w2, b2, A], [logpy] + dlogpy_dw)
     self.f_dH_dw = theano.function([x, w1, b1, w2, b2, A], [H] + dH_dw)

def compile_theano_functions():
    """
    Returns compiled theano functions.  
    
    Notes
    -----
    Originally used to speedup multiplication of large matrices and vectors.  Caused strange 
    issue in nipype where nipype unecessarily reran nodes that use these compiled functions.
    Not used in current implementation.
    """
    import theano.tensor as T
    import theano
    
    def TnormCols(X):
        """
        Theano expression which centers and normalizes columns of X `||x_i|| = 1`
        """
        Xc = X - X.mean(0)
        return Xc/T.sqrt( (Xc**2.).sum(0) )
    
    def TzscorrCols(Xn):
        """
        Theano expression which returns Fisher transformed correlation values between columns of a
        normalized input, `X_n`.  Diagonal is set to zero.
        """
        C_X = T.dot(Xn.T, Xn)-T.eye(Xn.shape[1])
        return 0.5*T.log((1+C_X)/(1-C_X))
    
    X,Y = T.dmatrices('X','Y')
    tdot = theano.function([X,Y], T.dot(X,Y))
    tnormcols = theano.function([X], TnormCols(X))

    return tdot, tnormcols

def compute_more_than_one():
    a,b = T.dmatrices('a','b')
    diff = a - b
    abs_diff = abs(diff)
    diff_sq = diff**2
    f = theano.function([a,b],[diff, abs_diff, diff_sq])
    print f([[0,0],[1,2]], [[2,3],[4,1]])

    def createObjectiveFunction(self):
        '''
        @escription: initialize objective function and minimization function
        @X,y data matrix/vector
        @u random noise for simulator
        @v standard normal for reparametrization trick
        '''
        X,u = T.dmatrices("X","u")
        f, y, v = T.dcols("f", "y", "v")
        
        mu = self.params[0]
        logSigma = self.params[1]
        logLambda = sharedX(np.log(self.sigma_e),name='logLambda')
        #logLambda = self.params[2]

        negKL = 0.5*self.dimTheta+0.5*T.sum(2*logSigma - mu ** 2 - T.exp(logSigma) ** 2)
        f = self.regression_simulator(X,u,v,mu,logSigma)

        logLike = -self.m*(0.5 * np.log(2 * np.pi) + logLambda)-0.5*T.sum((y-f)**2)/(T.exp(logLambda)**2)/self.Lu

        elbo = (negKL + logLike)
        obj = -elbo
        self.lowerboundfunction = th.function([X, y, u, v], obj, on_unused_input='ignore')
        derivatives = T.grad(obj,self.params)
        self.gradientfunction = th.function([X,y,u,v], derivatives, on_unused_input='ignore')

def multipleThingAtTheSameTime(a, b):
    x, y = T.dmatrices('x', 'y')
    diff = x - y
    abs_diff = abs(diff)
    diff_squared = diff**2
    summ = x + y
    f = th.function([x,y], [diff, abs_diff, diff_squared, summ])
    print(f(a, b))

    def createGradientFunctions(self):
        #Create the Theano variables
        W1,W2,W3,W4,W5,W6,x,eps = T.dmatrices("W1","W2","W3","W4","W5","W6","x","eps")
        #Create biases as cols so they can be broadcasted for minibatches
        b1,b2,b3,b4,b5,b6 = T.dcols("b1","b2","b3","b4","b5","b6")
        z1 = T.col("z1")
        if self.continuous:
            #convolve x
            # no_filters = 100, stride = 4, filter_size = 50

            h_encoder = T.tanh(T.dot(W1,x) + b1)
            #h_encoder = T.dot(W1,x) + b1
        else:   
            h_encoder = T.tanh(T.dot(W1,x) + b1)

        mu_encoder = T.dot(W2,h_encoder) + b2
        log_sigma_encoder = 0.5*(T.dot(W3,h_encoder) + b3)

        mu_encoder = T.dot(W2,h_encoder) + b2 
        log_sigma_encoder = 0.5*(T.dot(W3,h_encoder) + b3)

        #Find the hidden variable z
        z = mu_encoder + T.exp(log_sigma_encoder)*eps

        prior = 0.5* T.sum(1 + 2*log_sigma_encoder - mu_encoder**2 - T.exp(2*log_sigma_encoder))


        #Set up decoding layer
        if self.continuous:
            h_decoder = T.nnet.softplus(T.dot(W4,z) + b4)
            h_dec = T.nnet.softplus(T.dot(W4,z1) + b4)

            #h_decoder = T.dot(W4,z) + b4
            #h_dec = T.dot(W4,z1) + b4

            mu_decoder = T.tanh(T.dot(W5,h_decoder) + b5)
            mu_dec = T.tanh(T.dot(W5,h_dec) + b5)
            log_sigma_decoder = 0.5*(T.dot(W6,h_decoder) + b6)
            logpxz = T.sum(-(0.5 * np.log(2 * np.pi) + log_sigma_decoder) - 0.5 * ((x - mu_decoder) / T.exp(log_sigma_decoder))**2)
            gradvariables = [W1,W2,W3,W4,W5,W6,b1,b2,b3,b4,b5,b6]
        else:
            h_decoder = T.tanh(T.dot(W4,z) + b4)
            y = T.nnet.sigmoid(T.dot(W5,h_decoder) + b5)
            logpxz = -T.nnet.binary_crossentropy(y,x).sum()
            gradvariables = [W1,W2,W3,W4,W5,b1,b2,b3,b4,b5]
        logp = logpxz + prior

        #Compute all the gradients
        derivatives = T.grad(logp,gradvariables)

        #Add the lowerbound so we can keep track of results
        derivatives.append(logp)
        
        self.get_z = th.function(gradvariables+[x,eps],z,on_unused_input='ignore')
        self.generate = th.function(gradvariables+[z1,x,eps],mu_dec,on_unused_input='ignore')
        self.predict = th.function(gradvariables+[x,eps],mu_decoder,on_unused_input='ignore')
        self.gradientfunction = th.function(gradvariables + [x,eps], derivatives, on_unused_input='ignore')
        self.lowerboundfunction = th.function(gradvariables + [x,eps], logp, on_unused_input='ignore')

 def test_examples_3(self):
     a, b = T.dmatrices('a', 'b')
     diff         = a - b
     abs_diff     = abs(diff)
     diff_squared = diff**2
     f = function([a, b], [diff, abs_diff, diff_squared])
     elems = f([[1, 1], [1, 1]], [[0, 1], [2, 3]])
     assert numpy.all( elems[0] == array([[ 1.,  0.],[-1., -2.]]))
     assert numpy.all( elems[1] == array([[ 1.,  0.],[ 1.,  2.]]))
     assert numpy.all( elems[2] == array([[ 1.,  0.],[ 1.,  4.]]))

    def variables(self):
        
        # Define parameters 'w'
        v = {}
        v['w0x'], v['w0y'] = T.dmatrices('w0x','w0y')
        v['b0'] = T.dmatrix('b0')
        for i in range(1, len(self.n_hidden_q)):
            v['w'+str(i)] = T.dmatrix('w'+str(i))
            v['b'+str(i)] = T.dmatrix('b'+str(i))
        v['mean_w'] = T.dmatrix('mean_w')
        v['mean_b'] = T.dmatrix('mean_b')
        if self.type_qz in ['gaussian','gaussianmarg']:
            v['logvar_w'] = T.dmatrix('logvar_w')
        v['logvar_b'] = T.dmatrix('logvar_b')
        
        w = {}
        w['w0y'], w['w0z'] = T.dmatrices('w0y','w0z')
        w['b0'] = T.dmatrix('b0')
        for i in range(1, len(self.n_hidden_p)):
            w['w'+str(i)] = T.dmatrix('w'+str(i))
            w['b'+str(i)] = T.dmatrix('b'+str(i))
        w['out_w'] = T.dmatrix('out_w')
        w['out_b'] = T.dmatrix('out_b')
        
        if self.type_px == 'sigmoidgaussian' or self.type_px == 'gaussian':
            w['out_logvar_w'] = T.dmatrix('out_logvar_w')
            w['out_logvar_b'] = T.dmatrix('out_logvar_b')
        
        w['logpy'] = T.dmatrix('logpy')
        
        if self.type_pz == 'studentt':
            w['logv'] = T.dmatrix('logv')

        # Define latent variables 'z'
        z = {'eps': T.dmatrix('eps')}
        
        # Define observed variables 'x'
        x = {}
        x['x'] = T.dmatrix('x')
        x['y'] = T.dmatrix('y')
        
        return v, w, x, z

def test_1_examples_compute_more_than_1_return_value():
    a, b = T.dmatrices('a', 'b')
    diff = a - b
    abs_diff = abs(diff)
    diff_squared = diff**2
    f = theano.function([a, b], [diff, abs_diff, diff_squared])

    diff_res, abs_res, diff_squared_res = f([[1, 1], [1, 1]], [[0, 0], [2, 2]])
    np.testing.assert_array_almost_equal(diff_res, [[1, 1], [-1, -1]])
    np.testing.assert_array_almost_equal(abs_res, [[1, 1], [1, 1]])
    np.testing.assert_array_almost_equal(diff_squared_res, [[1, 1], [1, 1]])

    def createGradientFunctions(self):
        #Create the Theano variables
        W1,W2,W3,W4,W5,W6,x,eps = T.dmatrices("W1","W2","W3","W4","W5","W6","x","eps")

        #Create biases as cols so they can be broadcasted for minibatches
        b1,b2,b3,b4,b5,b6,pi = T.dcols("b1","b2","b3","b4","b5","b6","pi")
        
        if self.continuous:
            h_encoder = T.nnet.softplus(T.dot(W1,x) + b1)
        else:   
            h_encoder = T.tanh(T.dot(W1,x) + b1)
        print type(pi)    
        rng = T.shared_randomstreams.RandomStreams(seed=124)
        i = rng.choice(size=(1,), a=self.num_model, p=T.nnet.softmax(pi.T).T.flatten())

        mu_encoder = T.dot(W2[i[0]*self.dimZ:(1+i[0])*self.dimZ],h_encoder) + b2[i[0]*self.dimZ:(1+i[0])*self.dimZ]
        log_sigma_encoder = (0.5*(T.dot(W3[i[0]*self.dimZ:(1+i[0])*self.dimZ],h_encoder)))+ b3[i[0]*self.dimZ:(1+i[0])*self.dimZ]

        z = mu_encoder + T.exp(log_sigma_encoder)*eps
     
        
        prior = 0
        for i in range(self.num_model):
            prior += T.exp(pi[i][0])*0.5* T.sum(1 + 2*log_sigma_encoder[int(i)*self.dimZ:(1+int(i))*self.dimZ] - mu_encoder[int(i)*self.dimZ:(1+int(i))*self.dimZ]**2 - T.exp(2*log_sigma_encoder[int(i)*self.dimZ:(1+int(i))*self.dimZ]))
        prior /= T.sum(T.exp(pi))
        #Set up decoding layer
        if self.continuous:
            h_decoder = T.nnet.softplus(T.dot(W4,z) + b4)
            mu_decoder = T.nnet.sigmoid(T.dot(W5,h_decoder) + b5)
            log_sigma_decoder = 0.5*(T.dot(W6,h_decoder) + b6)
            logpxz = T.sum(-(0.5 * np.log(2 * np.pi) + log_sigma_decoder) - 0.5 * ((x - mu_decoder) / T.exp(log_sigma_decoder))**2)
            gradvariables = [W1,W2,W3,W4,W5,W6,b1,b2,b3,b4,b5,b6,pi]
        else:
            h_decoder = T.tanh(T.dot(W4,z) + b4)
            y = T.nnet.sigmoid(T.dot(W5,h_decoder) + b5)
            logpxz = -T.nnet.binary_crossentropy(y,x).sum()
            gradvariables = [W1,W2,W3,W4,W5,b1,b2,b3,b4,b5,pi]


        logp = logpxz + prior

        #Compute all the gradients
        derivatives = T.grad(logp,gradvariables)

        #Add the lowerbound so we can keep track of results
        derivatives.append(logpxz)
        
        self.gradientfunction = th.function(gradvariables + [x,eps], derivatives, on_unused_input='ignore')
        self.lowerboundfunction = th.function(gradvariables + [x,eps], logp, on_unused_input='ignore')
        self.hiddenstatefunction = th.function(gradvariables + [x,eps], z, on_unused_input='ignore')

def calc2elements():
    """
    一次计算两个输入元素。
    http://deeplearning.net/software/theano/tutorial/examples.html
    这是计算对数函数曲线的y值。输入一个矩阵，元素是x的取值，输出是与输入矩阵中元素对应的y值。
    """
    import theano.tensor as T
    from theano import pp
    a, b = T.dmatrices('a', 'b')
    diff = a - b
    abs_diff = abs(diff)
    diff_square = diff ** 2
    f = function([a, b], [diff, abs_diff, diff_square])
    diff, abs_diff, diff_square = f([[1, 1], [1, 1]], [[0, 1], [2, 3]])

    print (diff)
    print (abs_diff)
    print (diff_square)

    def __init__(self,
            initial_params=None):
        print 'Setting up variables ...'
        # Parameters
        if initial_params is None:
            initial_params = {'mean':None,
                              'sigma_n':0.+np_uniform_scalar(0),
                              'sigma_f':0.+np_uniform_scalar(0),
                              'l_k':0.+np.uniform_scalar(0)}
        if initial_params['mean'] == None:
            self.mean = shared_scalar(0.)
            self.meanfunc = 'zero'
        else:
            self.mean = shared_scalar(initial_params['mean'])
            self.meanfunc = 'const'
        self.sigma_n = shared_scalar(initial_params['sigma_n'])
        self.sigma_f = shared_scalar(initial_params['sigma_f'])
        self.l_k = shared_scalar(initial_params['l_k'])
        
        # Variables
        X,Y,x_test = T.dmatrices('X','Y','x_test')

        print 'Setting up model ...'
        K, Ks, Kss, y_test_mu, y_test_var, log_likelihood,L,alpha,V,fs2,sW = self.get_model(X, Y, x_test)

        print 'Compiling model ...'
        inputs = {'X': X, 'Y': Y, 'x_test': x_test}
        # solve a bug with derivative wrt inputs not in the graph
        z = 0.0*sum([T.sum(v) for v in inputs.values()])
        f = zip(['K', 'Ks', 'Kss', 'y_test_mu', 'y_test_var', 'log_likelihood',
                 'L','alpha','V','fs2','sW'],
                [K, Ks, Kss, y_test_mu, y_test_var, log_likelihood,
                 L, alpha,V,fs2,sW])
        self.f = {n: theano.function(inputs.values(), f+z, name=n, on_unused_input='ignore')
                     for n, f in f}

        if self.meanfunc == 'zero':
            wrt = {'sigma_n':self.sigma_n, 'sigma_f':self.sigma_f, 'l_k':self.l_k}
        else:
            wrt = {'mean':self.mean,'sigma_n':self.sigma_n, 'sigma_f':self.sigma_f, 'l_k':self.l_k}
        
        self.g = {vn: theano.function(inputs.values(), T.grad(log_likelihood,vv),
                                      name=vn,on_unused_input='ignore')
                                      for vn, vv in wrt.iteritems()}