[mlpack-git] [mlpack/mlpack] HyperNEAT algorithm (#754)
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Fri Aug 5 16:07:40 EDT 2016
Implement HyperNEAT algorithm and tests.
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-- Commit Summary --
* change .gitignore to ignore .DS_Store
* create gene.hpp, add ne_test.cpp, and created or modified multiple CMakeLists.txt.
* Created gene.happ, add tests and changed or created CMakeLists.txt
* Add aDepth to NeuronGene.
* implement CNE, haven't finish.
* delete blank files
* finished genome.hpp, revised gene.hpp
* modified gene.hpp
* implemented CNE skeleton; more genome and population functions.
* implemented XOR test case; need debugging; one heart function -- CNE::Evolve() remains to fulfill.
* solved most bugs for testing XOR
* further solved some bugs in code.
* Solved bugs. Need to fulfill Reproduce() to finish CNE.
* CNE algorithm finished. XOR test passes. Need to revise coding style and some TODOs. Then continue other algorithms.
* Create Species class.
* Revised LinkGene and related file for NEAT
* revised sortSpecies()
* add aAdjustedFitness to genome
* fix bug in CNE Reproduce()
* Implemented neat mutations, replace size_t by ssize_t
* Implemented crossover, some bug exist
* Revise Crossover, solve bugs, more functions implementations.
* revised neat functions. In paper,disabled links also consider for crossover and calc distance.
* neat almost finished. Need debugging,need revise coding style, need testing.
* NEAT finished, but has bugs. XOR not pass.
* In progress of debugging. Add lots of printf ... Will clear them after debugging
* seems bugs solved. keep printf. Seems information such as species size, numSpecies are not updated when things changed, that is why so many bugs.
* solve more bugs
* solved more. But still have problem.
* solved CalcAverageRank bug. Still have more.
* currently seems no bug. Previously we removed stale species even when species number is small, leads to species disappear.
* revised WeightDiff
* Removed redundant members in species, population. haven't remove in genome, as it caused some bug. Still need checking.
* Further cleaned some code.
* changed the place where we should set the childGenome's NumInput, NumOutput, GenomeDepth. However, seems calculate genome depth is quite slow.
* changed neuron_gene, genome's activation. Still need to revise neat.
* Revised MutateAddLink.
* solved some bugs about activation.
* Add Cart Pole test. Result not good. Fitness doesn't improve.
* Solved more bugs.
* Fixed a bug in task. Removed adjustFitness. Problems maybe the parameter setting.
* further revised something.
* Passed Cart Pole problem. Revised neat, task.
* Implemented test MountainCar, not pass yet.
* Seems passed Mountain Car.. in 1 iteration
* Revised a bug in TaskMountainCar Action()
* added Success() for tasks.
* Finished double pole. Non-Markov have bug.
* revised non-markov, still have bug
* revised neat MutateAddLink. Non-Markov still have bug.
* revised neat, clean genome before evaluate.
* Merge pull request #1 from mlpack/master
* revised a bug in Activate()
* fix conflict
* changed header file in ne_test
-- File Changes --
M .gitignore (2)
M src/mlpack/methods/CMakeLists.txt (1)
A src/mlpack/methods/ne/CMakeLists.txt (23)
A src/mlpack/methods/ne/cne.hpp (186)
A src/mlpack/methods/ne/genome.hpp (334)
A src/mlpack/methods/ne/link_gene.hpp (111)
A src/mlpack/methods/ne/neat.hpp (976)
A src/mlpack/methods/ne/neuron_gene.hpp (174)
A src/mlpack/methods/ne/parameters.hpp (96)
A src/mlpack/methods/ne/population.hpp (154)
A src/mlpack/methods/ne/species.hpp (141)
A src/mlpack/methods/ne/tasks.hpp (692)
A src/mlpack/methods/ne/utils.hpp (88)
M src/mlpack/tests/CMakeLists.txt (5)
A src/mlpack/tests/ne_test.cpp (691)
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