AlignmentRepaC/AlignmentRandomRepa.cpp at master · caiks/AlignmentRepaC · GitHub

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#include "AlignmentRandomRepa.h"

#include <cstring>
#include <stdlib.h>

using namespace Alignment;

// historyRepasShuffle_u :: HistoryRepa -> Int -> HistoryRepa
std::unique_ptr<HistoryRepa> Alignment::historyRepasShuffle_u(const HistoryRepa& hr, unsigned s)
{
	auto n = hr.dimension;
	auto vv = hr.vectorVar;
	auto sh = hr.shape;
	auto z = hr.size;
	auto rr = hr.arr;
	auto hr1 = std::make_unique<HistoryRepa>();
	if (!rr)
		return hr1;
	hr1->dimension = n;
	hr1->vectorVar = new std::size_t[n];
	auto vv1 = hr1->vectorVar;
	hr1->shape = new std::size_t[n];
	auto sh1 = hr1->shape;
	for (std::size_t i = 0; i < n; i++)
	{
		vv1[i] = vv[i];
		sh1[i] = sh[i];
	}
	hr1->size = z;
	hr1->evient = hr.evient;
	hr1->arr = new unsigned char[z*n];
	auto rr1 = hr1->arr;
	memcpy(rr1, rr, z*n);
	srand(s);
	if (hr.evient)
		for (std::size_t j = z-1; j != 0; j--)
		{
			auto jn = j*n;
			auto j1 = j+1;
			for (std::size_t i = 0; i < n; i++)
			{
				auto k = rand() % j1;
				auto kn = k*n;
				auto x = rr1[kn + i];
				rr1[kn + i] = rr1[jn + i];
				rr1[jn + i] = x;
			}
		}
	else
		for (std::size_t i = 0; i < n; i++)
		{
			auto iz = i*z;
			for (std::size_t j = z - 1; j != 0; j--)
			{
				auto k = rand() % (j + 1);
				auto x = rr1[iz + k];
				rr1[iz + k] = rr1[iz + j];
				rr1[iz + j] = x;
			}
		}
	return hr1;
}

std::unique_ptr<HistoryRepa> Alignment::historyRepasShuffle_us(const HistoryRepa& hr, std::ranlux48_base& generator)
{
	auto n = hr.dimension;
	auto vv = hr.vectorVar;
	auto sh = hr.shape;
	auto z = hr.size;
	auto rr = hr.arr;
	auto hr1 = std::make_unique<HistoryRepa>();
	if (!rr)
		return hr1;
	hr1->dimension = n;
	hr1->vectorVar = new std::size_t[n];
	auto vv1 = hr1->vectorVar;
	hr1->shape = new std::size_t[n];
	auto sh1 = hr1->shape;
	for (std::size_t i = 0; i < n; i++)
	{
		vv1[i] = vv[i];
		sh1[i] = sh[i];
	}
	hr1->size = z;
	hr1->evient = hr.evient;
	hr1->arr = new unsigned char[z*n];
	auto rr1 = hr1->arr;
	memcpy(rr1, rr, z*n);
	if (hr.evient)
		for (std::size_t j = z-1; j != 0; j--)
		{
			auto jn = j*n;
			auto j1 = j+1;
			for (std::size_t i = 0; i < n; i++)
			{
				auto k = generator() % j1;
				auto kn = k*n;
				auto x = rr1[kn + i];
				rr1[kn + i] = rr1[jn + i];
				rr1[jn + i] = x;
			}
		}
	else
		for (std::size_t i = 0; i < n; i++)
		{
			auto iz = i*z;
			for (std::size_t j = z - 1; j != 0; j--)
			{
				auto k = generator() % (j + 1);
				auto x = rr1[iz + k];
				rr1[iz + k] = rr1[iz + j];
				rr1[iz + j] = x;
			}
		}
	return hr1;
}

std::unique_ptr<HistorySparseArray> Alignment::historySparseArrayShuffle_us(const HistorySparseArray& hr, std::ranlux48_base& generator)
{
	auto n = hr.capacity;
	auto z = hr.size;
	auto rr = hr.arr;
	auto hr1 = std::make_unique<HistorySparseArray>();
	if (!(n*z) || !rr)
		return hr1;
	hr1->capacity = n;
	hr1->size = z;
	hr1->arr = new std::size_t[z*n];
	auto rr1 = hr1->arr;
	memcpy(rr1, rr, z*n*sizeof(std::size_t));
	for (std::size_t j = z-1; j != 0; j--)
	{
		auto jn = j*n;
		auto j1 = j+1;
		for (std::size_t i = 0; i < n; i++)
		{
			auto k = generator() % j1;
			auto kn = k*n;
			auto x = rr1[kn + i];
			rr1[kn + i] = rr1[jn + i];
			rr1[jn + i] = x;
		}
	}
	return hr1;
}