pvalue.h

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#ifndef PVALUE_H_B9D3D490_57EB_4E47_8057_0F8D7098FAA4
#define PVALUE_H_B9D3D490_57EB_4E47_8057_0F8D7098FAA4

#include <iosfwd>
#include <vector>

extern "C" {
#include <family.h>
}

void check_cache_and_compute_likelihoods(pCafeTree pTree, int max, pBirthDeathCacheArray cache);
void print_pvalues(std::ostream& ost, pCafeTree pcafe, int max, int num_random_samples, pBirthDeathCacheArray cache);
void read_pvalues(std::istream& ist, int count);
void write_pvalues(std::ostream& ost, pArrayList values, int count);
void pvalues_for_family(pCafeTree pTree, pCafeFamily family, family_size_range *range, int numthreads, int num_random_samples, int index);
void cafe_tree_p_values(pCafeTree pcafe, std::vector<double>& pvalues, std::vector<std::vector<double> >& pconddist, int cdlen);

class ConditionalDistribution
{
public:
    static std::vector<std::vector<double> > matrix;
    static void reset(pCafeTree pTree, family_size_range *range, int numthreads, int num_random_samples);
    static pArrayList to_arraylist();
};

#endif