Mercurial > ift6266
annotate utils/seriestables/test_series.py @ 572:7ee0e41dd3d5
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| author | Yoshua Bengio <bengioy@iro.umontreal.ca> |
|---|---|
| date | Fri, 06 Aug 2010 15:12:01 -0400 |
| parents | bfe20d63f88c |
| children |
| rev | line source |
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Completely rewrote my series module, now based on HDF5 and PyTables (in a separate directory called 'tables_series' for retrocompatibility of running code). Minor (inconsequential) changes to stacked_dae.
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1 import tempfile |
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2 |
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3 import numpy |
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4 import numpy.random |
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5 |
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6 from jobman import DD |
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7 |
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8 import tables |
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9 |
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10 from series import * |
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11 import series |
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12 |
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13 ################################################# |
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14 # Utils |
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15 |
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16 def compare_floats(f1,f2): |
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17 if f1-f2 < 1e-3: |
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18 return True |
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19 return False |
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20 |
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21 def compare_lists(it1, it2, floats=False): |
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22 if len(it1) != len(it2): |
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23 return False |
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24 |
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25 for el1, el2 in zip(it1, it2): |
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26 if floats: |
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27 if not compare_floats(el1,el2): |
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28 return False |
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29 elif el1 != el2: |
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30 return False |
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31 |
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32 return True |
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33 |
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34 ################################################# |
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35 # Basic Series class tests |
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36 |
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37 def test_Series_types(): |
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38 pass |
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39 |
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40 ################################################# |
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41 # ErrorSeries tests |
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42 |
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43 def test_ErrorSeries_common_case(h5f=None): |
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44 if not h5f: |
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45 h5f_path = tempfile.NamedTemporaryFile().name |
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46 h5f = tables.openFile(h5f_path, "w") |
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47 |
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48 validation_error = series.ErrorSeries(error_name="validation_error", table_name="validation_error", |
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49 hdf5_file=h5f, index_names=('epoch','minibatch'), |
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50 title="Validation error indexed by epoch and minibatch") |
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51 |
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52 # (1,1), (1,2) etc. are (epoch, minibatch) index |
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53 validation_error.append((1,1), 32.0) |
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54 validation_error.append((1,2), 30.0) |
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55 validation_error.append((2,1), 28.0) |
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56 validation_error.append((2,2), 26.0) |
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57 |
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58 h5f.close() |
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59 |
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60 h5f = tables.openFile(h5f_path, "r") |
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61 |
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62 table = h5f.getNode('/', 'validation_error') |
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63 |
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64 assert compare_lists(table.cols.epoch[:], [1,1,2,2]) |
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65 assert compare_lists(table.cols.minibatch[:], [1,2,1,2]) |
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66 assert compare_lists(table.cols.validation_error[:], [32.0, 30.0, 28.0, 26.0]) |
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67 |
| 226 | 68 def test_ErrorSeries_no_index(h5f=None): |
| 69 if not h5f: | |
| 70 h5f_path = tempfile.NamedTemporaryFile().name | |
| 71 h5f = tables.openFile(h5f_path, "w") | |
| 72 | |
| 73 validation_error = series.ErrorSeries(error_name="validation_error", | |
| 74 table_name="validation_error", | |
| 75 hdf5_file=h5f, | |
| 76 # empty tuple | |
| 77 index_names=tuple(), | |
| 78 title="Validation error with no index") | |
| 79 | |
| 80 # (1,1), (1,2) etc. are (epoch, minibatch) index | |
| 81 validation_error.append(tuple(), 32.0) | |
| 82 validation_error.append(tuple(), 30.0) | |
| 83 validation_error.append(tuple(), 28.0) | |
| 84 validation_error.append(tuple(), 26.0) | |
| 85 | |
| 86 h5f.close() | |
| 87 | |
| 88 h5f = tables.openFile(h5f_path, "r") | |
| 89 | |
| 90 table = h5f.getNode('/', 'validation_error') | |
| 91 | |
| 92 assert compare_lists(table.cols.validation_error[:], [32.0, 30.0, 28.0, 26.0]) | |
| 93 assert not ("epoch" in dir(table.cols)) | |
| 94 | |
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95 def test_ErrorSeries_notimestamp(h5f=None): |
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96 if not h5f: |
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97 h5f_path = tempfile.NamedTemporaryFile().name |
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98 h5f = tables.openFile(h5f_path, "w") |
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99 |
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100 validation_error = series.ErrorSeries(error_name="validation_error", table_name="validation_error", |
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101 hdf5_file=h5f, index_names=('epoch','minibatch'), |
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102 title="Validation error indexed by epoch and minibatch", |
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103 store_timestamp=False) |
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104 |
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105 # (1,1), (1,2) etc. are (epoch, minibatch) index |
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106 validation_error.append((1,1), 32.0) |
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107 |
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108 h5f.close() |
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109 |
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110 h5f = tables.openFile(h5f_path, "r") |
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111 |
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112 table = h5f.getNode('/', 'validation_error') |
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113 |
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114 assert compare_lists(table.cols.epoch[:], [1]) |
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115 assert not ("timestamp" in dir(table.cols)) |
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116 assert "cpuclock" in dir(table.cols) |
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117 |
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118 def test_ErrorSeries_nocpuclock(h5f=None): |
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119 if not h5f: |
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120 h5f_path = tempfile.NamedTemporaryFile().name |
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121 h5f = tables.openFile(h5f_path, "w") |
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122 |
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123 validation_error = series.ErrorSeries(error_name="validation_error", table_name="validation_error", |
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124 hdf5_file=h5f, index_names=('epoch','minibatch'), |
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125 title="Validation error indexed by epoch and minibatch", |
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126 store_cpuclock=False) |
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127 |
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128 # (1,1), (1,2) etc. are (epoch, minibatch) index |
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129 validation_error.append((1,1), 32.0) |
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130 |
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131 h5f.close() |
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132 |
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133 h5f = tables.openFile(h5f_path, "r") |
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134 |
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135 table = h5f.getNode('/', 'validation_error') |
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136 |
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137 assert compare_lists(table.cols.epoch[:], [1]) |
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138 assert not ("cpuclock" in dir(table.cols)) |
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139 assert "timestamp" in dir(table.cols) |
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140 |
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141 def test_AccumulatorSeriesWrapper_common_case(h5f=None): |
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142 if not h5f: |
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143 h5f_path = tempfile.NamedTemporaryFile().name |
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144 h5f = tables.openFile(h5f_path, "w") |
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145 |
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146 validation_error = ErrorSeries(error_name="accumulated_validation_error", |
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147 table_name="accumulated_validation_error", |
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148 hdf5_file=h5f, |
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149 index_names=('epoch','minibatch'), |
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150 title="Validation error, summed every 3 minibatches, indexed by epoch and minibatch") |
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151 |
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152 accumulator = AccumulatorSeriesWrapper(base_series=validation_error, |
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153 reduce_every=3, reduce_function=numpy.sum) |
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154 |
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155 # (1,1), (1,2) etc. are (epoch, minibatch) index |
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156 accumulator.append((1,1), 32.0) |
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157 accumulator.append((1,2), 30.0) |
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158 accumulator.append((2,1), 28.0) |
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159 accumulator.append((2,2), 26.0) |
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160 accumulator.append((3,1), 24.0) |
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161 accumulator.append((3,2), 22.0) |
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162 |
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163 h5f.close() |
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164 |
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165 h5f = tables.openFile(h5f_path, "r") |
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166 |
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167 table = h5f.getNode('/', 'accumulated_validation_error') |
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168 |
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169 assert compare_lists(table.cols.epoch[:], [2,3]) |
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170 assert compare_lists(table.cols.minibatch[:], [1,2]) |
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171 assert compare_lists(table.cols.accumulated_validation_error[:], [90.0,72.0], floats=True) |
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172 |
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173 def test_BasicStatisticsSeries_common_case(h5f=None): |
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174 if not h5f: |
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175 h5f_path = tempfile.NamedTemporaryFile().name |
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176 h5f = tables.openFile(h5f_path, "w") |
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177 |
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178 stats_series = BasicStatisticsSeries(table_name="b_vector_statistics", |
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179 hdf5_file=h5f, index_names=('epoch','minibatch'), |
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180 title="Basic statistics for b vector indexed by epoch and minibatch") |
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181 |
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182 # (1,1), (1,2) etc. are (epoch, minibatch) index |
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183 stats_series.append((1,1), [0.15, 0.20, 0.30]) |
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184 stats_series.append((1,2), [-0.18, 0.30, 0.58]) |
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185 stats_series.append((2,1), [0.18, -0.38, -0.68]) |
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186 stats_series.append((2,2), [0.15, 0.02, 1.9]) |
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187 |
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188 h5f.close() |
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189 |
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220
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190 h5f = tables.openFile(h5f_path, "r") |
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191 |
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192 table = h5f.getNode('/', 'b_vector_statistics') |
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193 |
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194 assert compare_lists(table.cols.epoch[:], [1,1,2,2]) |
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195 assert compare_lists(table.cols.minibatch[:], [1,2,1,2]) |
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196 assert compare_lists(table.cols.mean[:], [0.21666667, 0.23333333, -0.29333332, 0.69], floats=True) |
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197 assert compare_lists(table.cols.min[:], [0.15000001, -0.18000001, -0.68000001, 0.02], floats=True) |
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198 assert compare_lists(table.cols.max[:], [0.30, 0.58, 0.18, 1.9], floats=True) |
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199 assert compare_lists(table.cols.std[:], [0.06236095, 0.31382939, 0.35640177, 0.85724366], floats=True) |
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200 |
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210
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201 def test_SharedParamsStatisticsWrapper_commoncase(h5f=None): |
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208
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202 import numpy.random |
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203 |
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204 if not h5f: |
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205 h5f_path = tempfile.NamedTemporaryFile().name |
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220
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206 h5f = tables.openFile(h5f_path, "w") |
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208
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207 |
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210
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208 stats = SharedParamsStatisticsWrapper(new_group_name="params", base_group="/", |
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208
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209 arrays_names=('b1','b2','b3'), hdf5_file=h5f, |
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210 index_names=('epoch','minibatch')) |
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211 |
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210
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212 b1 = DD({'value':numpy.random.rand(5)}) |
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213 b2 = DD({'value':numpy.random.rand(5)}) |
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214 b3 = DD({'value':numpy.random.rand(5)}) |
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208
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215 stats.append((1,1), [b1,b2,b3]) |
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216 |
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217 h5f.close() |
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218 |
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220
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219 h5f = tables.openFile(h5f_path, "r") |
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208
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220 |
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221 b1_table = h5f.getNode('/params', 'b1') |
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222 b3_table = h5f.getNode('/params', 'b3') |
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223 |
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210
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224 assert b1_table.cols.mean[0] - numpy.mean(b1.value) < 1e-3 |
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225 assert b3_table.cols.mean[0] - numpy.mean(b3.value) < 1e-3 |
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226 assert b1_table.cols.min[0] - numpy.min(b1.value) < 1e-3 |
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227 assert b3_table.cols.min[0] - numpy.min(b3.value) < 1e-3 |
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208
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228 |
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224
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229 def test_SharedParamsStatisticsWrapper_notimestamp(h5f=None): |
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230 import numpy.random |
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231 |
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232 if not h5f: |
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233 h5f_path = tempfile.NamedTemporaryFile().name |
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234 h5f = tables.openFile(h5f_path, "w") |
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235 |
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236 stats = SharedParamsStatisticsWrapper(new_group_name="params", base_group="/", |
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237 arrays_names=('b1','b2','b3'), hdf5_file=h5f, |
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238 index_names=('epoch','minibatch'), |
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239 store_timestamp=False) |
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240 |
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241 b1 = DD({'value':numpy.random.rand(5)}) |
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242 b2 = DD({'value':numpy.random.rand(5)}) |
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243 b3 = DD({'value':numpy.random.rand(5)}) |
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244 stats.append((1,1), [b1,b2,b3]) |
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245 |
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246 h5f.close() |
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247 |
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248 h5f = tables.openFile(h5f_path, "r") |
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249 |
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250 b1_table = h5f.getNode('/params', 'b1') |
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251 b3_table = h5f.getNode('/params', 'b3') |
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252 |
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253 assert b1_table.cols.mean[0] - numpy.mean(b1.value) < 1e-3 |
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254 assert b3_table.cols.mean[0] - numpy.mean(b3.value) < 1e-3 |
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255 assert b1_table.cols.min[0] - numpy.min(b1.value) < 1e-3 |
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256 assert b3_table.cols.min[0] - numpy.min(b3.value) < 1e-3 |
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257 |
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258 assert not ('timestamp' in dir(b1_table.cols)) |
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259 |
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208
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260 def test_get_desc(): |
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261 h5f_path = tempfile.NamedTemporaryFile().name |
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220
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262 h5f = tables.openFile(h5f_path, "w") |
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208
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263 |
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218
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264 desc = series._get_description_with_n_ints_n_floats(("col1","col2"), ("col3","col4")) |
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208
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265 |
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266 mytable = h5f.createTable('/', 'mytable', desc) |
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267 |
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268 # just make sure the columns are there... otherwise this will throw an exception |
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269 mytable.cols.col1 |
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270 mytable.cols.col2 |
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271 mytable.cols.col3 |
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272 mytable.cols.col4 |
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273 |
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274 try: |
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275 # this should fail... LocalDescription must be local to get_desc_etc |
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276 test = LocalDescription |
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277 assert False |
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278 except: |
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279 assert True |
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280 |
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281 assert True |
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282 |
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220
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283 def test_index_to_tuple_floaterror(): |
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284 try: |
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285 series._index_to_tuple(5.1) |
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286 assert False |
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287 except TypeError: |
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288 assert True |
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289 |
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290 def test_index_to_tuple_arrayok(): |
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291 tpl = series._index_to_tuple([1,2,3]) |
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292 assert type(tpl) == tuple and tpl[1] == 2 and tpl[2] == 3 |
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293 |
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294 def test_index_to_tuple_intbecomestuple(): |
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295 tpl = series._index_to_tuple(32) |
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296 |
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297 assert type(tpl) == tuple and tpl == (32,) |
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298 |
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299 def test_index_to_tuple_longbecomestuple(): |
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300 tpl = series._index_to_tuple(928374928374928L) |
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301 |
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302 assert type(tpl) == tuple and tpl == (928374928374928L,) |
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303 |
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208
acb942530923
Completely rewrote my series module, now based on HDF5 and PyTables (in a separate directory called 'tables_series' for retrocompatibility of running code). Minor (inconsequential) changes to stacked_dae.
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304 if __name__ == '__main__': |
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Completely rewrote my series module, now based on HDF5 and PyTables (in a separate directory called 'tables_series' for retrocompatibility of running code). Minor (inconsequential) changes to stacked_dae.
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305 import tempfile |
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Completely rewrote my series module, now based on HDF5 and PyTables (in a separate directory called 'tables_series' for retrocompatibility of running code). Minor (inconsequential) changes to stacked_dae.
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306 test_get_desc() |
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Completely rewrote my series module, now based on HDF5 and PyTables (in a separate directory called 'tables_series' for retrocompatibility of running code). Minor (inconsequential) changes to stacked_dae.
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307 test_ErrorSeries_common_case() |
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Completely rewrote my series module, now based on HDF5 and PyTables (in a separate directory called 'tables_series' for retrocompatibility of running code). Minor (inconsequential) changes to stacked_dae.
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308 test_BasicStatisticsSeries_common_case() |
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Completely rewrote my series module, now based on HDF5 and PyTables (in a separate directory called 'tables_series' for retrocompatibility of running code). Minor (inconsequential) changes to stacked_dae.
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309 test_AccumulatorSeriesWrapper_common_case() |
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210
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Commented table_series code, changed ParamsStatisticsArray to take shared params instead, create DummySeries to use when we don't want to save a named series
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310 test_SharedParamsStatisticsWrapper_commoncase() |
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208
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Completely rewrote my series module, now based on HDF5 and PyTables (in a separate directory called 'tables_series' for retrocompatibility of running code). Minor (inconsequential) changes to stacked_dae.
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311 |