[mlpack-git] [mlpack/mlpack] Neural evolution algorithms implementation (CNE, NEAT, HyperNEAT) (#686)

[Excalibur]

> +  // Sort genomes by fitness. Smaller fitness is better and put first.
> +  void SortGenomes(std::vector<Genome>& genomes) {
> +    std::sort(genomes.begin(), genomes.end(), Species::CompareGenome);
> +  }
> +
> +  // Get genome index in a genomes vector.
> +  ssize_t GetGenomeIndex(std::vector<Genome>& genomes, ssize_t id) {
> +    for (ssize_t i=0; i<genomes.size(); ++i) {
> +      if (genomes[i].Id() == id)
> +        return i;
> +    }
> +    return -1;
> +  }
> +
> +  // Calculate species' average rank in population by fitness. Bigger is better.
> +  void CalcSpeciesAverageRank(Population& population, std::vector<double>& speciesAverageRank) {

Sorry, but I am not clear what this means.
The average rank is the average of each genome's rank in this species. And
the rank of each genome is using the fitness of genome.

2016-07-16 16:10 GMT-06:00 Marcus Edel <notifications at github.com>:

> In src/mlpack/methods/ne/neat.hpp
> <https://github.com/mlpack/mlpack/pull/686#discussion_r71072586>:
>
> > +  // Sort genomes by fitness. Smaller fitness is better and put first.
> > +  void SortGenomes(std::vector<Genome>& genomes) {
> > +    std::sort(genomes.begin(), genomes.end(), Species::CompareGenome);
> > +  }
> > +
> > +  // Get genome index in a genomes vector.
> > +  ssize_t GetGenomeIndex(std::vector<Genome>& genomes, ssize_t id) {
> > +    for (ssize_t i=0; i<genomes.size(); ++i) {
> > +      if (genomes[i].Id() == id)
> > +        return i;
> > +    }
> > +    return -1;
> > +  }
> > +
> > +  // Calculate species' average rank in population by fitness. Bigger is better.
> > +  void CalcSpeciesAverageRank(Population& population, std::vector<double>& speciesAverageRank) {
>
> Don't we have to use the fitness of the genomes to calculate the rank?
>
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