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annotate doc/v2_planning/plugin_RP.py @ 1310:f5e9c00a67d7

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fix rst problem.
author Frederic Bastien <nouiz@nouiz.org>
date Tue, 05 Oct 2010 12:31:36 -0400
parents 681b5e7e3b81
children
rev   line source
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1 '''
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2
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3 !!! Incomplete file .. many of the things I've set up to do are not done
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4 yet !!!
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5
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6 ============
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7 Introduction
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8 ============
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9
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10 What this file talks about
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11 ==========================
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12 * Proposal for the layer committee
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13 * Proposal of how to deal with plug-ins ( STEP 2)
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14 * Description of how to glue the two parts
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15 * Some personal beliefs and argumentation
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16
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17 The file will point out how :
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18 * to use the API's other committee proposed or why and how they should
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19 change
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20 * it satisfies the listed requirements ( or why it doesn't)
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21 * this approach might be better then others ( or worse) to the best of
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22 my knowledge
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23
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24
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25 Motivation for writing this file
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26 ================================
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27
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28 I wrote this file because:
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29 * It will probably answer most of the questions regarding my view,
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30 minimizing the time wasted on talks
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31 * When prezenting the entire interface helps see holes in the approach
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32 * Is here for everybody to read ( easier disimination of information)
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33
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34
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35 =======
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36 Concept
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37 =======
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38
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39 I think any experiment that we ( or anybody else ) would want to run with
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40 our library will be composed of two steps :
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41
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42 * Step 1. Constructing (or choosing or initializing) the model, the
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43 datasets, error measures, optimizers and so on ( everything up to the
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44 iterative loop). I think this step has been covered by different
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45 committies but possibly glued together by the layer committee.
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46
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47 * Step 2. Compose the iterative loops and perform them ( this is what the
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48 architecture committee dealt with)
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49
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50 I believe there is a natural way of going from *Step 1* to *Step 2*
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51 which would be presented as Step 1.5
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52
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53 Step 2
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54 ======
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55
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56 I will start with step 2 ( because I think that is more of a hot subject
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57 right now). I will assume you have the right plugins at hand.
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58 This is a DBN with early stopping and ..
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59
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60 .. code-block:: python
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61 '''
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62 data = load_mnist()
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63 train_xy valid_xy test_xy = split(data, split =
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64 [(0,40000),(40000,50000),[50000,60000]])
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65 train_x, train_y = train_xy
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66 valid_x, valid_y = valid_xy
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67 test_x, test_y = test_xy
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68
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69 ################# CONSTRUCTING THE MODEL ###################################
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70 ############################################################################
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71
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72 x0 = pca(train_x)
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73
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74 ## Layer 1:
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75 h1 = sigmoid(dotW_b(x0,units = 200), constraint = L1( coeff = 0.1))
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76 x1 = recurrent_layer()
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77 x1.t0 = x0
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78 x1.value = binomial_sample(sigmoid( reconstruct( binomial_sample(h1), x0)))
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79 cost = free_energy(train_x) - free_energy(x1.t(5))
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80 grads = [ (g.var, T.grad(cost.var, g.var)) for g in cost.params ]
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81 pseudo_cost = sum([ pl.sum(pl.abs(g)) for g in cost.params])
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82 rbm1 = SGD( cost = pseudo_cost, grads = grads)
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83
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84 # Layer 2:
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85 rbm2,h2 = rbm(h1, units = 200, k = 5, use= 'CD')
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86 # Logreg
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87 logreg,out = logreg(h2, units = 10)
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88 train_err = mean_over(missclassification(argmax(out), train_y))
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89 valid_err = train_err.replace({train_x:valid_x, train_y:valid_y})
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90 test_err = train_err.replace({train_x: test_x, train_y: test_y})
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91
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92 ##########################################################################
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93 ############### Constructing the training loop ###########################
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94
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95 ca = Schedular()
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96
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97
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98 ### Constructing Modes ###
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99 class pretrain_layer1 ()
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100
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101 def register()
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102 {
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103 }
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104 pretrain_layer2 = ca.mode('pretrain1')
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105 early_stopping = ca.mode('early')
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106 code_block = ca.mode('code_block')
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107 kfolds = ca.mode('kfolds')
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108
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109 # Construct modes dependency graph
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110 code_block.include([ pretrian_layer1, pretrain_layer2, early_stopper])
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111 kfolds.include( code_block )
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112
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113 pretrain_layer1.act( on = code_block.begin(), when = always())
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114 pretrain_layer2.act( on = pretrain_layer1.end(), when = always())
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115 early_stopping.act ( on = pretrain_layer2.end(), when = always())
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117
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118 # Construct counter plugin that keeps track of number of epochs
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119 @FnPlugin
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120 def counter(self, msg):
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121 # a bit of a hack.. it will look more classic if you would
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122 # start with a class instead
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123 if not hasattr(self, 'val'):
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124 self.val = 0
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125
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126 if msg = Message('eod'):
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127 self.val += 1
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128 if self.val < 10:
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129 self.fire(Message('continue'))
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130 else:
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131 self.fire(Message('terminate'))
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132
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133
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134 # Construct pre-training plugins
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135 rbm1_plugin = pretrain_layer1.include(plugin_wrapper(rbm1))
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136 rbm2_plugin = pretrain_layer2.include(plugin_wrapper(rbm2))
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137 rbm1_counter = pretrain_layer1.include(counter)
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138 rbm2_counter = pretrain_layer2.include(counter)
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139
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140 rbm1_plugin.listen(Message('init'), update_hyperparameters)
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141 rbm1_plugin.listen(Message('continue'), dataset_restart)
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142 rbm2_plugin.listen(Message('init'), update_hyperparameters)
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143 rbm2_plugin.listen(Message('continue'), dataset_restart)
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144
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145
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146 # Dependency graph for pre-training layer 0
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147 rbm1_plugin.act( on = [ pretrain_layer1.begin() ,
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148 rbm1_plugin.value() ] ,
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149 when = always())
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150 rbm1_counter.act( on = rbm1_plugin.eod(), when = always() )
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151
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152
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153 # Dependency graph for pre-training layer 1
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154 rbm2_plugin.act( on = [ pretrain_layer2.begin() ,
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155 rbm2_plugin.value() ] ,
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156 when = always())
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157 pretrain_layer2.stop( on = rbm2_plugin.eod(), when = always())
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158
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159
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160 # Constructing fine-tunning plugins
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161 learner = early_stopper.include(plugin_wrapper(logreg))
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162 validation = early_stopper.include( plugin_wrapper(valid_err)))
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163 clock = early_stopper.include( ca.generate_clock())
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164 early_stopper_plugin = early_stopper.include( early_stopper_plugin)
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165
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166
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167 def save_model(plugin):
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168 cPickle.dump(plugin.object, 'just_the_model.pkl')
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169
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170 learner.listen(Message('init'), update_hyperparameters)
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171 validation.listen(Message('init'), update_hyperparameters)
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172 validation.listen(early_stopper_plugin.new_best_score(), save_model)
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173
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174 learner.act( on = early_stopper.begin(), when = always())
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175 learner.act( on = learner.value(), when = always())
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176 validation.act( on = clock.hour(), when = every(n = 1))
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177 early_stopper.act( on = validation.value(), when = always())
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178
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179 @FnPlugin
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180 def kfolds_plugin(self,event):
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181 if not hasattr(self, 'n'):
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182 self.n = -1
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183 self.splits = [ [ ( 0,40000),(40000,50000),(50000,60000) ],
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184 [ (10000,50000),(50000,60000),( 0,10000) ],
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185 [ (20000,60000),( 0,10000),(10000,20000) ] ]
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186 if self.n < 3:
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187 self.n += 1
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188 msg = Message('new split')
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189 msg.data = (data.get_hyperparam('split'),self.splits[self.n])
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190 self.fire(msg)
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191 else:
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192 self.fire(Message('terminate'))
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193
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194
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195 kfolds.include(kfolds_plugin)
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196 kfolds_plugin.act([kfolds.begin(), Message('new split')], when = always())
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197 kfolds_plugin.act(code_block.end(), always() )
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198 code_block.act(Message('new split'), always() )
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199
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200 sched.include(kfolds)
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201
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202 sched.run()
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203
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204 '''
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205
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206
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207
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208 Notes:
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209 when a mode is regstered to begin with a certain message, it will
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210 rebroadcast that message when it starts, with only switching the
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211 type from whatever it was to 'init'. It will also send all 'init' messages
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212 of the mode in which is included ( or of the schedular).
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213
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214 one might be able to shorten this by having Macros that creates modes
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215 and automatically register certain plugins to it; you can always
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216 afterwards add plugins to any mode
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217
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218
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219
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220 Step 1
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221 ======
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222
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223
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224 You start with the dataset that you construct as the dataset committee
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225 proposed to. You continue constructing your model by applying
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226 transformation, more or less like you would in Theano. When constructing
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227 your model you also get a graph "behind the scene". Note though that
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228 this graph is totally different then the one Theano would create!
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229 Let start with an example:
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230
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231 .. code-block:: python
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232
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233 '''
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234 data_x, data_y = GPU_transform(load_mnist())
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235 output = sigmoid(dotW_b(data_x,10))
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236 err = cross_entropy(output, data_y)
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237 learner = SGD(err)
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238 '''
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239
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240 This shows how to create the learner behind the logistic regression,
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241 but not the function that will compute the validation error or the test
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242 error ( or any other statistics). Before going into the detail of what
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243 all those transforms ( or the results after applying one) means, here
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244 is another partial example for a SdA :
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245
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246 .. code-block:: python
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247
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248 '''
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249 ## Layer 1:
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250
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251 data_x,data_y = GPU_transform(load_mnist())
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252 noisy_data_x = gaussian_noise(data_x, amount = 0.1)
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253 hidden1 = tanh(dotW_b(data_x, n_units = 200))
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254 reconstruct1 = reconstruct(hidden1.replace(data_x, noisy_data_x),
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255 noisy_data_x)
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256 err1 = cross_entropy(reconstruct1, data_x)
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257 learner1 = SGD(err1)
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258
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259 # Layer 2 :
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260 noisy_hidden1 = gaussian_noise(hidden1, amount = 0.1)
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261 hidden2 = tanh(dotW_b(hidden1, n_units = 200))
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262 reconstruct2 = reconstruct(hidden2.replace(hidden1,noisy_hidden1),
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263 noisy_hidden1)
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264 err2 = cross_entropy(reconstruct2, hidden)
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265 learner2 = SGD(err2)
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266
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267 # Top layer:
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268
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269 output = sigmoid(dotW_b(hidden2, n_units = 10))
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270 err = cross_entropy(output, data_y)
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271 learner = SGD(err)
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272
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273 '''
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274
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275 What's going on here?
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276 ---------------------
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277
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278 By calling different "transforms" (we could call them ops or functions)
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279 you decide what the architecture does. What you get back from applying
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280 any of these transforms, are nodes. You have different types of nodes
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281 (which I will enumerate a bit later) but they all offer a basic interface.
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282 That interface is the dataset API + a few more methods and/or attributes.
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283 There are also a few transform that work on the graph that I think will
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284 be pretty useful :
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285
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286 * .replace(dict) -> method; replaces the subgraphs given as keys with
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287 the ones given as values; throws an exception if it
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288 is impossible
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289
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290 * replace(nodes, dict) -> function; call replace on all nodes given that dictionary
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291
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292 * reconstruct(dict) -> transform; tries to reconstruct the nodes given as
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293 keys starting from the nodes given as values by
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294 going through the inverse of all transforms that
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295 are in between
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296
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297 * .tm, .tp -> methods; returns nodes that correspond to the value
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298 at t-k or t+k
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299 * recurrent_layer -> function; creates a special type of node that is
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300 recurrent; the node has two important attributes that
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301 need to be specified before calling the node iterator;
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302 those attributes are .t0 which represents the initial
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303 value and .value which should describe the recurrent
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304 relation
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305 * add_constraints -> transform; adds a constraint to a given node
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306 * data_listener -> function; creates a special node that listens for
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307 messages to get data; it should be used to decompose
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308 the architecture in modules that can run on different
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309 machines
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310
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311 * switch(hyperparam, dict) -> transform; a lazy switch that allows you
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312 do construct by hyper-parameters
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313
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314 * get_hyperparameter(name) -> method; given a name it will return the first node
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315 starting from top that is a hyper parameter and has
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316 that name
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317 * get_parameter(name) -> method; given a name it will return the first node
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318 starting from top that is a parameter and has that
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319 name
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320 * get_hyperparameters()
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321 * get_parameters()
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322
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323
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324
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325
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326 Because every node provides the dataset API it means you can iterate over
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327 any of the nodes. They will produce the original dataset transformed up
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328 to that point.
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329
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330 ** NOTES **
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331 1. This is not like a symbolic graph. When adding a transform
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332 you can get a warning straight forward. This is because you start from
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333 the dataset and you always have access to some data. Though sometime
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334 you would want to have the nodes lazy, i.e. not try to compute everything
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335 until the graph is done.
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336
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337 2. You can still have complex Theano expressions. Each node has a
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338 theano variable describing the graph up to that point + optionally
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339 a compiled function over which you can iterate. We can use some
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340 on_demand mechanism to compile when needed.
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341
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342 What types of nodes do you have
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343 --------------------------------
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344
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345 Note that this differentiation is more or less semantical and not
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346 mandatory syntactical. Is just to help understanding the graph.
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347
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348
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349 * Data Nodes -- datasets are such nodes; the result of any
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350 simple transform is also a data node ( like the result
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351 of a sigmoid, or dotW_b)
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352 * Learner Nodes -- they are the same as data nodes, with the
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353 difference that they have side effects on the model;
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354 they update the weights
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355 * Apply Nodes -- they are used to connect input variables to
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356 the transformation/op node and output nodes
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357 * Dependency Nodes -- very similar to apply nodes just that they connect
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358 constraints subgraphs to a model graph
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359 * Parameter Nodes -- when iterating over them they will only output
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360 the values of the parameters;
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361 * Hyper-parameter Nodes -- very similar to parameter nodes; this is a
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362 semantical difference ( they are not updated by the
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363 any learner nodes)
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364 * Transform Nodes -- this nodes describe the mathematical function
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365 and if there is one the inverse of that transform; there
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366 would usually be two types of transforms; ones that use
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367 theano and those that do not -- this is because those that
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368 do can be composed
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369
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370 Each node is lazy, in the sense that unless you try to iterate on it, it
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371 will not try to compute the next value.
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372
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373
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374 Isn't this too low level ?
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375 --------------------------
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376
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377 I think that way of writing and decomposing your neural network is
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378 efficient and useful when writing such networks. Of course when you
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379 just want to run a classical SdA you shouldn't need to go through the
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380 trouble of writing all that. I think we should have Macors for this.
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381
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382 * Macro -- syntactically it looks just like a transform (i.e. a python
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383 function) only that it actually applies multiple transforms to the input
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384 and might return several nodes (not just one).
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385 Example:
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386
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387
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388 learner, prediction, pretraining-learners = SdA(
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389 input = data_x,
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390 target = data_y,
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391 hiddens = [200,200],
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392 noises = [0.1,0.1])
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393
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394
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395 How do you deal with loops ?
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396 ----------------------------
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397
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398 When implementing architectures you some time need to loop like for
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399 RNN or CD, PCD etc. Adding loops in such a scheme is always hard.
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400 I borrowed the idea in the code below from PyBrain. You first construct
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401 a shell layer that you call recurrent layer. Then you define the
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402 functionality by giving the initial value and the recurrent step.
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403 For example:
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404
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405 .. code-block:: python
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406
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407 '''
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408 # sketch of writing a RNN
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409 x = load_mnist()
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410 y = recurrent_layer()
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411 y.value = tanh(dotW(x, n=50).t(0) + dotW(y.t(-1),50))
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412 y.t0 = zeros( (50,))
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413 out = dotW(y,10)
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414
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415
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416 # sketch of writing CDk starting from x
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417 x = recurrent_layer()
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418 x.t0 = input_values
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419 h = binomial_sample( sigmoid( dotW_b(x.tm(1))))
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420 x.value = binomial_sample( sigmoid( reconstruct(h, x.tm(1))))
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421 ## the assumption is that the inverse of sigmoid is the identity fn
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422 pseudo_cost = free_energy(x.tp(k)) - free_energy(x.t0)
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423
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424
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425 '''
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426
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427 How do I deal with constraints ?
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428 --------------------------------
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429
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430 Use the add constrain. You are required to pass a transform with its
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431 hyper-parameters initial values ?
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432
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433
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434 How do I deal with other type of networs ?
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435 ------------------------------------------
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436
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437 (opaque transforms)
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438
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439 new_data = PCA(data_x)
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440
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441
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442 svn_predictions = SVN(data_x)
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443 svn_learner = SVN_learner(svn_predictions)
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444 # Note that for the SVN this might be just syntactic sugar; we have the two
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445 # steps because we expect different interfaces for this nodes
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446
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447
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448
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449 Step 1.5
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450 ========
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451
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452 There is a wrapper function called plugin. Once you call plugin over
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453 any of the previous nodes you will get a plugin that has a certain
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454 set of conventions
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455
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456 ''''