Mercurial > pylearn
annotate dataset.py @ 8:d1c394486037
Replaced asarray() method by __array__ method which gets called automatically when
trying to cast into an array or numpy array or upon numpy.asarray(dataset).
author | bengioy@bengiomac.local |
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date | Mon, 24 Mar 2008 15:56:53 -0400 |
parents | 6f8f338686db |
children | de616c423dbd |
rev | line source |
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1 |
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2 |
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3 class DataSet(object): |
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4 """ |
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5 This is a virtual base class or interface for datasets. |
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6 A dataset is basically an iterator over examples. It does not necessarily |
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7 have a fixed length (this is useful for 'streams' which feed on-line learning). |
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8 Datasets with fixed and known length are FiniteDataSet, a subclass of DataSet. |
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9 Examples and datasets optionally have named fields. |
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10 One can obtain a sub-dataset by taking dataset.field or dataset(field1,field2,field3,...). |
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11 Fields are not mutually exclusive, i.e. two fields can overlap in their actual content. |
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12 The content of a field can be of any type, but often will be a numpy array. |
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13 The minibatch_size field, if different than 1, means that the iterator (next() method) |
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14 returns not a single example but an array of length minibatch_size, i.e., an indexable |
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15 object. |
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16 """ |
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17 |
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18 def __init__(self,minibatch_size=1): |
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19 assert minibatch_size>0 |
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20 self.minibatch_size=minibatch_size |
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21 |
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22 def __iter__(self): |
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23 """ |
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24 Return an iterator, whose next() method returns the next example or the next |
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25 minibatch in the dataset. A minibatch (of length > 1) should be something one |
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26 can iterate on again in order to obtain the individual examples. If the dataset |
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27 has fields, then the example or the minibatch must have the same fields |
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28 (typically this is implemented by returning another (small) dataset, when |
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29 there are fields). |
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30 """ |
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31 raise NotImplementedError |
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32 |
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33 def __getattr__(self,fieldname): |
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34 """Return a sub-dataset containing only the given fieldname as field.""" |
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35 return self(fieldname) |
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36 |
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37 def __call__(self,*fieldnames): |
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38 """Return a sub-dataset containing only the given fieldnames as fields.""" |
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39 raise NotImplementedError |
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40 |
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41 def fieldNames(self): |
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42 """Return the list of field names that are supported by getattr and getFields.""" |
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43 raise NotImplementedError |
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44 |
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45 class FiniteDataSet(DataSet): |
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46 """ |
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47 Virtual interface, a subclass of DataSet for datasets which have a finite, known length. |
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48 Examples are indexed by an integer between 0 and self.length()-1, |
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49 and a subdataset can be obtained by slicing. |
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50 """ |
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51 |
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52 def __init__(self,minibatch_size): |
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53 DataSet.__init__(self,minibatch_size) |
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54 |
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55 def __iter__(self): |
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56 return FiniteDataSetIterator(self) |
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57 |
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58 def __len__(self): |
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59 """len(dataset) returns the number of examples in the dataset.""" |
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60 raise NotImplementedError |
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61 |
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62 def __getitem__(self,i): |
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63 """dataset[i] returns the (i+1)-th example of the dataset.""" |
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64 raise NotImplementedError |
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65 |
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66 def __getslice__(self,*slice_args): |
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67 """dataset[i:j] returns the subdataset with examples i,i+1,...,j-1.""" |
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68 raise NotImplementedError |
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69 |
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70 class FiniteDataSetIterator(object): |
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71 def __init__(self,dataset): |
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72 self.dataset=dataset |
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73 self.current = -self.dataset.minibatch_size |
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74 |
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75 def next(self): |
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76 """ |
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77 Return the next example(s) in the dataset. If self.dataset.minibatch_size>1 return that |
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78 many examples. If the dataset has fields, the example or the minibatch of examples |
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79 is just a minibatch_size-rows ArrayDataSet (so that the fields can be accessed), |
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80 but that resulting mini-dataset has a minibatch_size of 1, so that one can iterate |
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81 example-wise on it. On the other hand, if the dataset has no fields (e.g. because |
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82 it is already the field of a bigger dataset), then the returned example or minibatch |
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83 may be any indexable object, such as a numpy array. Following the array semantics of indexing |
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84 and slicing, if the minibatch_size is 1 (and there are no fields), then the result is an array |
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85 with one less dimension (e.g., a vector, if the dataset is a matrix), corresponding |
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86 to a row. Again, if the minibatch_size is >1, one can iterate on the result to |
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87 obtain individual examples (as rows). |
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88 """ |
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89 self.current+=self.dataset.minibatch_size |
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90 if self.current>=len(self.dataset): |
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91 self.current=-self.dataset.minibatch_size |
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92 raise StopIteration |
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93 if self.dataset.minibatch_size==1: |
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94 return self.dataset[self.current] |
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95 else: |
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96 return self.dataset[self.current:self.current+self.dataset.minibatch_size] |
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97 |
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98 |
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99 # we may want ArrayDataSet defined in another python file |
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100 |
4 | 101 import numpy |
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102 |
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103 class ArrayDataSet(FiniteDataSet): |
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104 """ |
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105 A fixed-length and fixed-width dataset in which each element is a numpy array |
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106 or a number, hence the whole dataset corresponds to a numpy array. Fields |
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107 must correspond to a slice of columns. If the dataset has fields, |
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108 each 'example' is just a one-row ArrayDataSet, otherwise it is a numpy array. |
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109 Any dataset can also be converted to a numpy array (losing the notion of fields) |
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110 by the numpy.array(dataset) call. |
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111 """ |
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112 |
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113 def __init__(self,dataset=None,data=None,fields={},minibatch_size=1): |
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114 """ |
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115 Construct an ArrayDataSet, either from a DataSet, or from |
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116 a numpy array plus an optional specification of fields (by |
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117 a dictionary of column slices indexed by field names). |
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118 """ |
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119 FiniteDataSet.__init__(self,minibatch_size) |
4 | 120 if dataset!=None: |
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121 assert data==None and fields=={} |
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122 # convert dataset to an ArrayDataSet |
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123 raise NotImplementedError |
4 | 124 if data!=None: |
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125 assert dataset==None |
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126 self.data=data |
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127 self.fields=fields |
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128 self.width = data.shape[1] |
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129 for fieldname in fields: |
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130 fieldslice=fields[fieldname] |
4 | 131 # make sure fieldslice.start and fieldslice.step are defined |
132 start=fieldslice.start | |
133 step=fieldslice.step | |
134 if not start: | |
135 start=0 | |
136 if not step: | |
137 step=1 | |
138 if not fieldslice.start or not fieldslice.step: | |
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139 fields[fieldname] = fieldslice = slice(start,fieldslice.stop,step) |
4 | 140 # and coherent with the data array |
141 assert fieldslice.start>=0 and fieldslice.stop<=self.width | |
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142 assert minibatch_size<=len(self.data) |
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143 |
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144 def __getattr__(self,fieldname): |
4 | 145 """ |
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146 Return a numpy array with the content associated with the given field name. |
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147 If this is a one-example dataset, then a row, i.e., numpy array (of one less dimension |
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148 than the dataset.data) is returned. |
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149 """ |
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150 if len(self.data)==1: |
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151 return self.data[0,self.fields[fieldname]] |
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152 return self.data[:,self.fields[fieldname]] |
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153 |
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154 def __call__(self,*fieldnames): |
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155 """Return a sub-dataset containing only the given fieldnames as fields.""" |
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156 min_col=self.data.shape[1] |
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157 max_col=0 |
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158 for field_slice in self.fields.values(): |
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159 min_col=min(min_col,field_slice.start) |
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160 max_col=max(max_col,field_slice.stop) |
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161 new_fields={} |
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162 for field in self.fields: |
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163 new_fields[field[0]]=slice(field[1].start-min_col,field[1].stop-min_col,field[1].step) |
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164 return ArrayDataSet(data=self.data[:,min_col:max_col],fields=new_fields,minibatch_size=self.minibatch_size) |
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165 |
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166 def fieldNames(self): |
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167 """Return the list of field names that are supported by getattr and getFields.""" |
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168 return self.fields.keys() |
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169 |
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170 def __len__(self): |
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171 """len(dataset) returns the number of examples in the dataset.""" |
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172 return len(self.data) |
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173 |
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174 def __getitem__(self,i): |
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175 """ |
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176 dataset[i] returns the (i+1)-th example of the dataset. If the dataset has fields |
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177 then a one-example dataset is returned (to be able to handle example.field accesses). |
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178 """ |
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179 if self.fields: |
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180 if isinstance(i,slice): |
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181 return ArrayDataSet(data=data[slice],fields=self.fields) |
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182 return ArrayDataSet(data=self.data[i:i+1],fields=self.fields) |
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183 else: |
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184 return self.data[i] |
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185 |
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186 def __getslice__(self,*slice_args): |
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187 """dataset[i:j] returns the subdataset with examples i,i+1,...,j-1.""" |
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188 return ArrayDataSet(data=self.data[apply(slice,slice_args)],fields=self.fields) |
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189 |
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190 def __array__(self): |
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191 if not self.fields: |
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192 return self.data |
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193 # else, select subsets of columns mapped by the fields |
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194 columns_used = numpy.zeros((self.data.shape[1]),dtype=bool) |
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195 for field_slice in self.fields.values(): |
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196 for c in xrange(field_slice.start,field_slice.stop,field_slice.step): |
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197 columns_used[c]=True |
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198 # try to figure out if we can map all the slices into one slice: |
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199 mappable_to_one_slice = True |
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200 start=0 |
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201 while start<len(columns_used) and not columns_used[start]: |
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202 start+=1 |
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203 stop=len(columns_used) |
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204 while stop>0 and not columns_used[stop-1]: |
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205 stop-=1 |
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206 step=0 |
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207 i=start |
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208 while i<stop: |
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209 j=i+1 |
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210 while j<stop and not columns_used[j]: |
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211 j+=1 |
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212 if step: |
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213 if step!=j-i: |
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214 mappable_to_one_slice = False |
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215 break |
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216 else: |
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217 step = j-i |
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218 i=j |
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219 if mappable_to_one_slice: |
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220 return self.data[:,slice(start,stop,step)] |
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221 # else make contiguous copy |
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222 n_columns = sum(columns_used) |
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223 result = zeros((len(self.data),n_columns)+self.data.shape[2:],self.data.dtype) |
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224 print result.shape |
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225 c=0 |
6f8f338686db
Moved iterating counter into a FiniteDataSetIterator to allow embedded iterations and multiple threads iterating at the same time on a dataset.
bengioy@bengiomac.local
parents:
6
diff
changeset
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226 for field_slice in self.fields.values(): |
6f8f338686db
Moved iterating counter into a FiniteDataSetIterator to allow embedded iterations and multiple threads iterating at the same time on a dataset.
bengioy@bengiomac.local
parents:
6
diff
changeset
|
227 slice_width=field_slice.stop-field_slice.start/field_slice.step |
6f8f338686db
Moved iterating counter into a FiniteDataSetIterator to allow embedded iterations and multiple threads iterating at the same time on a dataset.
bengioy@bengiomac.local
parents:
6
diff
changeset
|
228 # copy the field here |
6f8f338686db
Moved iterating counter into a FiniteDataSetIterator to allow embedded iterations and multiple threads iterating at the same time on a dataset.
bengioy@bengiomac.local
parents:
6
diff
changeset
|
229 result[:,slice(c,slice_width)]=self.data[:,field_slice] |
6f8f338686db
Moved iterating counter into a FiniteDataSetIterator to allow embedded iterations and multiple threads iterating at the same time on a dataset.
bengioy@bengiomac.local
parents:
6
diff
changeset
|
230 c+=slice_width |
6f8f338686db
Moved iterating counter into a FiniteDataSetIterator to allow embedded iterations and multiple threads iterating at the same time on a dataset.
bengioy@bengiomac.local
parents:
6
diff
changeset
|
231 return result |