Mercurial > pylearn
annotate doc/v2_planning.txt @ 997:71b0132b694a
mcRBM - removed container logic that was redundant with global methods
| author | James Bergstra <bergstrj@iro.umontreal.ca> |
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| date | Tue, 24 Aug 2010 16:00:08 -0400 |
| parents | 216f4ce969b2 |
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| 941 | 1 |
| 2 Motivation | |
| 3 ========== | |
| 4 | |
| 5 Yoshua: | |
| 6 ------- | |
| 7 | |
| 8 We are missing a *Theano Machine Learning library*. | |
| 9 | |
| 10 The deep learning tutorials do a good job but they lack the following features, which I would like to see in a ML library: | |
| 11 | |
| 12 - a well-organized collection of Theano symbolic expressions (formulas) for handling most of | |
| 13 what is needed either in implementing existing well-known ML and deep learning algorithms or | |
| 14 for creating new variants (without having to start from scratch each time), that is the | |
| 15 mathematical core, | |
| 16 | |
| 17 - a well-organized collection of python modules to help with the following: | |
| 18 - several data-access models that wrap around learning algorithms for interfacing with various types of data (static vectors, images, sound, video, generic time-series, etc.) | |
| 19 - generic utility code for optimization | |
| 20 - stochastic gradient descent variants | |
| 21 - early stopping variants | |
| 22 - interfacing to generic 2nd order optimization methods | |
| 23 - 2nd order methods tailored to work on minibatches | |
| 24 - optimizers for sparse coefficients / parameters | |
| 25 - generic code for model selection and hyper-parameter optimization (including the use and coordination of multiple jobs running on different machines, e.g. using jobman) | |
| 26 - generic code for performance estimation and experimental statistics | |
| 27 - visualization tools (using existing python libraries) and examples for all of the above | |
| 28 - learning algorithm conventions and meta-learning algorithms (bagging, boosting, mixtures of experts, etc.) which use them | |
| 29 | |
| 30 [Note that many of us already use some instance of all the above, but each one tends to reinvent the wheel and newbies don't benefit from a knowledge base.] | |
| 31 | |
| 32 - a well-documented set of python scripts using the above library to show how to run the most | |
| 33 common ML algorithms (possibly with examples showing how to run multiple experiments with | |
| 34 many different models and collect statistical comparative results). This is particularly | |
| 35 important for pure users to adopt Theano in the ML application work. | |
| 36 | |
| 37 Ideally, there would be one person in charge of this project, making sure a coherent and | |
| 38 easy-to-read design is developed, along with many helping hands (to implement the various | |
| 39 helper modules, formulae, and learning algorithms). | |
| 40 | |
| 41 | |
| 42 James: | |
| 43 ------- | |
| 44 | |
| 45 I am interested in the design and implementation of the "well-organized collection of Theano | |
| 46 symbolic expressions..." | |
| 47 | |
| 48 I would like to explore algorithms for hyper-parameter optimization, following up on some | |
| 49 "high-throughput" work. I'm most interested in the "generic code for model selection and | |
| 50 hyper-parameter optimization..." and "generic code for performance estimation...". | |
| 51 | |
| 52 I have some experiences with the data-access requirements, and some lessons I'd like to share | |
| 53 on that, but no time to work on that aspect of things. | |
| 54 | |
| 55 I will continue to contribute to the "well-documented set of python scripts using the above to | |
| 56 showcase common ML algorithms...". I have an Olshausen&Field-style sparse coding script that | |
| 57 could be polished up. I am also implementing the mcRBM and I'll be able to add that when it's | |
| 58 done. | |
| 59 | |
| 60 | |
| 61 | |
| 62 Suggestions for how to tackle various desiderata | |
| 63 ================================================ | |
| 64 | |
| 65 | |
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66 Theano Symbolic Expressions for ML |
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67 ---------------------------------- |
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68 |
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69 We could make this a submodule of pylearn: ``pylearn.nnet``. |
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70 |
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71 Yoshua: I would use a different name, e.g., "pylearn.formulas" to emphasize that it is not just |
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72 about neural nets, and that this is a collection of formulas (expressions), rather than |
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73 completely self-contained classes for learners. We could have a "nnet.py" file for |
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74 neural nets, though. |
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75 |
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76 There are a number of ideas floating around for how to handle classes / |
| 947 | 77 modules (LeDeepNet, pylearn.shared.layers, pynnet, DeepAnn) so lets implement as much |
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78 math as possible in global functions with no classes. There are no models in |
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79 the wish list that require than a few vectors and matrices to parametrize. |
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80 Global functions are more reusable than classes. |
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81 |
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82 |
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83 Data access |
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84 ----------- |
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85 |
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86 A general interface to datasets from the perspective of an experiment driver |
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87 (e.g. kfold) is to see them as a function that maps index (typically integer) |
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88 to example (whose type and nature depends on the dataset, it could for |
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89 instance be an (image, label) pair). This interface permits iterating over |
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90 the dataset, shuffling the dataset, and splitting it into folds. For |
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91 efficiency, it is nice if the dataset interface supports looking up several |
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92 index values at once, because looking up many examples at once can sometimes |
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93 be faster than looking each one up in turn. In particular, looking up |
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94 a consecutive block of indices, or a slice, should be well supported. |
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95 |
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96 Some datasets may not support random access (e.g. a random number stream) and |
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97 that's fine if an exception is raised. The user will see a NotImplementedError |
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98 or similar, and try something else. We might want to have a way to test |
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99 that a dataset is random-access or not without having to load an example. |
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100 |
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101 |
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102 A more intuitive interface for many datasets (or subsets) is to load them as |
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103 matrices or lists of examples. This format is more convenient to work with at |
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104 an ipython shell, for example. It is not good to provide only the "dataset |
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105 as a function" view of a dataset. Even if a dataset is very large, it is nice |
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106 to have a standard way to get some representative examples in a convenient |
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107 structure, to be able to play with them in ipython. |
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108 |
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109 |
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110 Another thing to consider related to datasets is that there are a number of |
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111 other efforts to have standard ML datasets, and we should be aware of them, |
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112 and compatible with them when it's easy: |
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113 - mldata.org (they have a file format, not sure how many use it) |
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114 - weka (ARFF file format) |
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115 - scikits.learn |
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116 - hdf5 / pytables |
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117 |
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118 |
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119 pylearn.datasets uses a DATA_ROOT environment variable to locate a filesystem |
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120 folder that is assumed to have a standard form across different installations. |
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121 That's where the data files are. The correct format of this folder is currently |
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122 defined implicitly by the contents of /data/lisa/data at DIRO, but it would be |
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123 better to document in pylearn what the contents of this folder should be as |
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124 much as possible. It should be possible to rebuild this tree from information |
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125 found in pylearn. |
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126 |
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127 Yoshua (about ideas proposed by Pascal Vincent a while ago): |
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128 |
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129 - we may want to distinguish between datasets and tasks: a task defines |
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130 not just the data but also things like what is the input and what is the |
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131 target (for supervised learning), and *importantly* a set of performance metrics |
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132 that make sense for this task (e.g. those used by papers solving a particular |
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133 task, or reported for a particular benchmark) |
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134 |
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135 - we should discuss about a few "standards" that datasets and tasks may comply to, such as |
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136 - "input" and "target" fields inside each example, for supervised or semi-supervised learning tasks |
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137 (with a convention for the semi-supervised case when only the input or only the target is observed) |
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138 - "input" for unsupervised learning |
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139 - conventions for missing-valued components inside input or target |
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140 - how examples that are sequences are treated (e.g. the input or the target is a sequence) |
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141 - how time-stamps are specified when appropriate (e.g., the sequences are asynchronous) |
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142 - how error metrics are specified |
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143 * example-level statistics (e.g. classification error) |
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144 * dataset-level statistics (e.g. ROC curve, mean and standard error of error) |
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145 |
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146 |
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147 Model Selection & Hyper-Parameter Optimization |
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148 ---------------------------------------------- |
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149 |
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150 Driving a distributed computing job for a long time to optimize |
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151 hyper-parameters using one or more clusters is the goal here. |
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152 Although there might be some library-type code to write here, I think of this |
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153 more as an application template. The user would use python code to describe |
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154 the experiment to run and the hyper-parameter space to search. Then this |
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155 application-driver would take control of scheduling jobs and running them on |
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156 various computers... I'm imagining a potentially ugly brute of a hack that's |
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157 not necessarily something we will want to expose at a low-level for reuse. |
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158 |
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159 Yoshua: We want both the library-defined driver that takes instructions about how to generate |
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160 new hyper-parameter combinations (e.g. implicitly providing a prior distribution from which |
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161 to sample them), and examples showing how to use it in typical cases. |
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162 Note that sometimes we just want to find the best configuration of hyper-parameters, |
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163 but sometimes we want to do more subtle analysis. Often a combination of both. |
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164 In this respect it could be useful for the user to define hyper-parameters over |
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165 which scientific questions are sought (e.g. depth of an architecture) vs |
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166 hyper-parameters that we would like to marginalize/maximize over (e.g. learning rate). |
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167 This can influence both the sampling of configurations (we want to make sure that all |
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168 combinations of question-driving hyper-parameters are covered) and the analysis |
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169 of results (we may be willing to estimate ANOVAs or averaging or quantiles over |
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170 the non-question-driving hyper-parameters). |
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171 |
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172 Python scripts for common ML algorithms |
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173 --------------------------------------- |
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174 |
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175 The script aspect of this feature request makes me think that what would be |
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176 good here is more tutorial-type scripts. And the existing tutorials could |
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177 potentially be rewritten to use some of the pylearn.nnet expressions. More |
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178 tutorials / demos would be great. |
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179 |
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180 Yoshua: agreed that we could write them as tutorials, but note how the |
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181 spirit would be different from the current deep learning tutorials: we would |
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182 not mind using library code as much as possible instead of trying to flatten |
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183 out everything in the interest of pedagogical simplicity. Instead, these |
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184 tutorials should be meant to illustrate not the algorithms but *how to take |
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185 advantage of the library*. They could also be used as *BLACK BOX* implementations |
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186 by people who don't want to dig lower and just want to run experiments. |
| 941 | 187 |
| 188 Functional Specifications | |
| 189 ========================= | |
| 190 | |
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191 TODO: |
| 941 | 192 Put these into different text files so that this one does not become a monster. |
| 193 For each thing with a functional spec (e.g. datasets library, optimization library) make a | |
| 194 separate file. | |
| 195 | |
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196 |
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197 |
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198 pylearn.formulas |
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199 ---------------- |
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200 |
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201 Directory with functions for building layers, calculating classification |
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202 errors, cross-entropies with various distributions, free energies, etc. This |
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203 module would include for the most part global functions, Theano Ops and Theano |
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204 optimizations. |
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205 |
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206 Yoshua: I would break it down in module files, e.g.: |
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207 |
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208 pylearn.formulas.costs: generic / common cost functions, e.g. various cross-entropies, squared error, |
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209 abs. error, various sparsity penalties (L1, Student) |
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210 |
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211 pylearn.formulas.linear: formulas for linear classifier, linear regression, factor analysis, PCA |
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212 |
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213 pylearn.formulas.nnet: formulas for building layers of various kinds, various activation functions, |
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214 layers which could be plugged with various costs & penalties, and stacked |
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215 |
| 947 | 216 pylearn.formulas.ae: formulas for auto-encoders and denoising auto-encoder variants |
| 217 | |
| 218 pylearn.formulas.noise: formulas for corruption processes | |
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219 |
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220 pylearn.formulas.rbm: energies, free energies, conditional distributions, Gibbs sampling |
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221 |
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222 pylearn.formulas.trees: formulas for decision trees |
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223 |
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224 pylearn.formulas.boosting: formulas for boosting variants |
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225 |
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226 etc. |
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227 |
| 947 | 228 Fred: It seam that the DeepANN git repository by Xavier G. have part of this as function. |
| 229 | |
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230 Indexing Convention |
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231 ~~~~~~~~~~~~~~~~~~~ |
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232 |
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233 Something to decide on - Fortran-style or C-style indexing. Although we have |
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234 often used c-style indexing in the past (for efficiency in c!) this is no |
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235 longer an issue with numpy because the physical layout is independent of the |
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236 indexing order. The fact remains that Fortran-style indexing follows linear |
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237 algebra conventions, while c-style indexing does not. If a global function |
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238 includes a lot of math derivations, it would be *really* nice if the code used |
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239 the same convention for the orientation of matrices, and endlessly annoying to |
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240 have to be always transposing everything. |
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241 |