// This file is a part of Framsticks SDK.  http://www.framsticks.com/
// Copyright (C) 1999-2015  Maciej Komosinski and Szymon Ulatowski.
// See LICENSE.txt for details.

#include "conv_fF.h"
#include "fF_genotype.h"
#include <common/nonstd_stl.h>
#include <common/Convert.h>

GenoConv_fF0::GenoConv_fF0()
{
	name = "7-value Foraminifera encoding";
	in_format = 'F';
	out_format = '0';
	mapsupport = 0;
	cosines = new double[fF_LATITUDE_NUM];
	sines = new double[fF_LATITUDE_NUM];
	precompute_cos_and_sin();
}

GenoConv_fF0::~GenoConv_fF0()
{
	delete[] cosines;
	delete[] sines;
}

Part *GenoConv_fF0::addNewPart(Model *m, const fF_chamber3d* c)
{
	Part *part = m->addNewPart(Part::SHAPE_ELLIPSOID);
	part->p = Pt3D(c->centerX, c->centerY, c->centerZ);
	Pt3D hole = Pt3D(c->holeX, c->holeY, c->holeZ);
	Orient o;
	o.lookAt(part->p - hole);
	part->setOrient(o);
	return part;
}

SString GenoConv_fF0::convert(SString &in, MultiMap *map)
{
	fF_growth_params gp;
	if (!gp.load(in.c_str())) //invalid input genotype?
		return ""; //so we return an invalid f0 genotype

	double div_radius_length = 1; //div_radius_length=1 or kx=ky=kz=1
	double radius = 1;

	Model m;
	m.open();

	m.vis_style = "foram"; //dedicated visual look for Foraminifera

	fF_chamber3d **chambers = new fF_chamber3d*[gp.number_of_chambers];
	for (int i = 0; i < gp.number_of_chambers; i++)
		createSphere(i, chambers, radius, div_radius_length, gp.translation, gp.angle1, gp.angle2, gp.scalex, gp.scaley, gp.scalez);

	Part *p1 = addNewPart(&m, chambers[0]);
	for (int i = 1; i < gp.number_of_chambers; i++)
	{
		Part *p2 = addNewPart(&m, chambers[i]);
		p2->scale = p1->scale.entrywiseProduct(Pt3D(gp.scalex, gp.scaley, gp.scalez)); //each part's scale is its predecessor's scale * scaling
		m.addNewJoint(p1, p2, Joint::SHAPE_SOLID); //all parts must be connected
		p1 = p2;
	}

	for (int i = 0; i < gp.number_of_chambers; i++)
		delete chambers[i];
	delete[] chambers;

	m.close();
	return m.getF0Geno().getGene();
}

void GenoConv_fF0::createSphere(int which, fF_chamber3d **chambers, double radius_, double div_radius_length_, double div_vector_length_,
	double alpha_, double gamma_, double kx_, double ky_, double kz_)
{
	chambers[which] = new fF_chamber3d(0.0f, 0.0f, 0.0f,
		(float)radius_, (float)radius_ * (float)kx_, 0.0f, 0.0f,
		(float)(radius_ * div_vector_length_), 0.0f, 0.0f, 0.0f, 0.0f);
	if (which == 0)
		chambers[which]->points = generate_points(chambers[which], which, kx_, ky_, kz_);
	if (which > 0) {
		/* old radius */
		double radiusOld, radius;
		radiusOld = chambers[which - 1]->radius;
		radius = div_radius_length_ * radiusOld;
		/* new growth vector length */
		double len = radius * div_vector_length_;
		if (radius < fF_TOO_LITTLE) {
			radius = fF_TOO_LITTLE;
			if (fabs(len) > (fF_TOO_MUCH * radius)) {
				len = ((len < 0) ? (-1) : 1) * fF_TOO_MUCH * radius;
			}
		}
		if (len == 0) {
			len = -0.0000001;
		}

		/* aperture of the previous chamber */
		double pzx = chambers[which - 1]->holeX;
		double pzy = chambers[which - 1]->holeY;
		double pzz = chambers[which - 1]->holeZ;

		//center of the previous chamber
		double pcx = chambers[which - 1]->centerX;
		double pcy = chambers[which - 1]->centerY;
		//double pcz = chambers[which - 1]->centerZ; //not used

		/* aperture of the next to last chamber */
		double ppx;
		double ppy;
		//double ppz; //not used

		if (which == 1)
		{
			ppx = pcx;
			ppy = pcy;
			//ppz = pcz;
		}
		else
		{
			ppx = chambers[which - 2]->holeX;
			ppy = chambers[which - 2]->holeY;
			//ppz = chambers[which - 2]->holeZ;
		}

		double pzxprim = pzx - ppx;
		double pzyprim = pzy - ppy;
		double angle;

		angle = Convert::atan_2(pzyprim, pzxprim);
		double alpha = angle - alpha_;


		double gamma = chambers[which - 1]->phi + gamma_;

		/* x */
		double wx = len * cos(alpha);
		/* y */
		double wy = len * sin(alpha);
		/* y */
		double wz = len * sin(alpha) * sin(gamma);

		/*center of the new sphere*/
		double x = pzx + wx;
		double y = pzy + wy;
		double z = pzz + wz;

		chambers[which]->centerX = (float)x;
		chambers[which]->centerY = (float)y;
		chambers[which]->centerZ = (float)z;
		chambers[which]->radius = (float)radius;
		chambers[which]->vectorTfX = (float)wx;
		chambers[which]->vectorTfY = (float)wy;
		chambers[which]->vectorTfZ = (float)wz;
		chambers[which]->beta = (float)alpha;
		chambers[which]->phi = (float)gamma;

		chambers[which]->points = generate_points(chambers[which], which, kx_, ky_, kz_);
		search_hid(which, chambers, kx_, ky_, kz_);
		int pun;
		pun = find_hole(which, pzx, pzy, pzz, chambers, kx_, ky_, kz_);

		chambers[which]->holeX = (float)chambers[which]->points[pun].x;
		chambers[which]->holeY = (float)chambers[which]->points[pun].y;
		chambers[which]->holeZ = (float)chambers[which]->points[pun].z;
	}
}

void GenoConv_fF0::precompute_cos_and_sin()
{
	int i;
	double pi = acos(-1.0);
	double angle = pi / (((double)fF_LATITUDE_NUM)*0.5);
	for (i = 0; i < fF_LATITUDE_NUM; i++)
	{
		cosines[i] = cos((double)i * angle);
		sines[i] = sin((double)i * angle);
	}
}

fF_point* GenoConv_fF0::generate_points(fF_chamber3d *chamber, int which, double kx_, double ky_, double kz_)
{
	float radius = chamber->radius;
	float cenx = chamber->centerX;
	float ceny = chamber->centerY;
	float cenz = chamber->centerZ;

	double maxX = 0;
	double maxY = 0;
	double minX = 0;
	double minY = 0;
	double minZ = 0;

	double kx = 1;
	double ky = 1;
	double kz = 1;

	if (which > 0)
	{
		for (int kt = 1; kt < (which + 1); kt++)
		{
			kx = kx * kx_;
			ky = ky * ky_;
			kz = kz * kz_;
		}
	}

	bool all_k_ones = kx_ == 1 && ky_ == 1 && kz_ == 1;

	double rx = all_k_ones ? radius : kx;
	double ry = all_k_ones ? radius : ky;
	double rz = all_k_ones ? radius : kz;

	fF_point *points = new fF_point[fF_SIZE];

	for (int i = 0; i < fF_LONGITUDE_NUM; i++)
	{
		double y = ceny + ry * cosines[i];

		for (int j = 0; j < fF_LATITUDE_NUM; j++)
		{
			double x = cenx + rx * cosines[j] * sines[i];
			double z = cenz + rz * sines[j] * sines[i];
			fF_point &p = points[(i * fF_LATITUDE_NUM) + j];
			p.x = x;
			p.y = y;
			p.z = z;
			p.inside = false;

			if (x < minX) minX = x;
			if (x > maxX) maxX = x;
			if (y < minY) minY = y;
			if (y > maxY) maxY = y;

			if (z < minZ) minZ = z;
		}
	}
	return points;

}

double GenoConv_fF0::dist(double x1, double y1, double z1, double x2, double y2, double z2)
{
	return sqrt((x2 - x1)*(x2 - x1) + (y2 - y1)*(y2 - y1) + (z2 - z1)*(z2 - z1));
}

void GenoConv_fF0::search_hid(int nr, fF_chamber3d **spheres, double kx_, double ky_, double kz_)
{
	double kxsq = kx_*kx_;
	double kysq = ky_*ky_;
	double kzsq = kz_*kz_;

	for (int i = 0; i < nr; i++)
	{
		double srX0 = spheres[i]->centerX;
		double srY0 = spheres[i]->centerY;
		double srZ0 = spheres[i]->centerZ;

		double radsq = spheres[i]->radius * spheres[i]->radius;

		double a2 = kx_ != 1 ? kxsq : radsq;
		double b2 = ky_ != 1 ? kysq : radsq;
		double c2 = kzsq * radsq;

		for (int j = 0; j < fF_AMOUNT; j++)
		{
			fF_point &p = spheres[nr]->points[j];

			double up1 = (p.x - srX0) * (p.x - srX0);
			double up2 = (p.y - srY0) * (p.y - srY0);
			double up3 = (p.z - srZ0) * (p.z - srZ0);

			double exp1 = up1 / a2;
			double exp2 = up2 / b2;
			double exp3 = up3 / c2;

			double result = exp1 + exp2 + exp3;

			if (result < fF_THICK_RATIO)
			{
				p.inside = true;
			}
		}
	}
}

int GenoConv_fF0::find_hole(int which, double x, double y, double z, fF_chamber3d **chambers, double kx_, double ky_, double kz_)
{
	int found = -1;
	double distsq_found;

	double kxsq = kx_*kx_;
	double kysq = ky_*ky_;
	double kzsq = kz_*kz_;

	for (int i = 0; i < fF_AMOUNT; i++)
	{
		fF_point &p = chambers[which]->points[i];
		if (!p.inside) //it is not inside another chamber
		{
			double distancesq = (p.x - x)*(p.x - x) + (p.y - y)*(p.y - y) + (p.z - z)*(p.z - z);
			if (found < 0)
			{
				found = i;
				distsq_found = distancesq;
			}
			if (distancesq < distsq_found)
			{
				if (which != 0)
				{
					bool good = true;
					for (int j = 0; j < which && good; j++)
					{
						double srX0 = chambers[j]->centerX;
						double srY0 = chambers[j]->centerY;
						double srZ0 = chambers[j]->centerZ;

						double radsq = chambers[j]->radius * chambers[j]->radius;

						double a2 = kxsq * radsq;
						double b2 = kysq * radsq;
						double c2 = kzsq * radsq;

						double up1 = (p.x - srX0) * (p.x - srX0);
						double up2 = (p.y - srY0) * (p.y - srY0);
						double up3 = (p.z - srZ0) * (p.z - srZ0);

						double exp1 = up1 / a2;
						double exp2 = up2 / b2;
						double exp3 = up3 / c2;

						double result = exp1 + exp2 + exp3;
						if (result < 1.0)
						{
							good = false;
						}
					}
					if (good)
					{
						found = i;
						distsq_found = distancesq;
					}
				}
			}
		}
	}

	return found;
}