EcoliSimulator  2.0.1a
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Funz_C Class Reference

Base class for the function describing the ligand concentration. More...

#include <Funz_C.h>

Inheritance diagram for Funz_C:
Funz_C_Par Funz_C_Inter

Public Member Functions

 Funz_C ()
 
 Funz_C (const Funz_C &f)
 
virtual double new_F_C (double t, std::array< double, 2 > x)
 
void reset_parameter ()
 
virtual void set_parameter ()
 
virtual void get_coordinate (std::array< double, 2 > x, int *n)
 
virtual void get_coordinate1 (std::array< double, 2 > x, int *n)
 
virtual void all_informations (std::ofstream &file_save)
 
virtual void info_stat (std::ofstream &file_stat)
 
virtual void read_info_stat (int fchange_par, std::ifstream &file_stat, std::streampos &posizion)
 
virtual void print_fc (std::ofstream &file_save, double t)
 
virtual void print_info (std::ofstream &file_save)
 
virtual void preview_F_C ()
 
void gnuplotFunC (double max_fc, double dt, int n_frames)
 

Public Attributes

int change_par
 
double D_c
 
double max_x
 
double min_x
 
double max_y
 
double min_y
 
double degradation_rate
 
int n_x
 
int n_y
 
double dx
 
double dy
 
int interact
 
double ** f_c
 
double ** q_c
 

Static Public Attributes

static int num_funz = 9
 

Friends

double Histogram_3D_FunzC (Funz_C *f, double dt, int n_frame_max)
 

Detailed Description

Base class for the function describing the ligand concentration.

NOTE: If you add new functions, you should add the same in Funz_C::print_info

  • case 0:

    0- Type Function: Gaussian $$c(t,x):= C_10*exp(-x^2/C_00)*(R<=C_20) = 6*exp(-pow(R,2)/10)*(R<=100)$$"

  • case 1:

    1- Type Function: smoothed Jump $$c(t,x):= C_01+C_11*(t>C_21) = 1+2*(t>15)$$

  • case 2:

    2- Type Function: Dancing Sombrero $$c(t,x):= ... $$

break;

  • case 3:

    3- Type Function: Jump up/down $$c(t,x):= 1+C_13*(t<=C_03)+C_23*(t>C_03)*(t<=C_03+1)*pow(t-C_03,2)+C_23*(t>C_03+1)$$ $$ = 1+2*(t<=6)+7*(t>6)*(t<=6+1)*pow(t-6,2)+7*(t>6+1)$$

  • case 4:

    4- Type Function: -----—> Maybe we should change this function Cambiare la funzione !! $$c(t,x):= 1+C_14*(t<C_04)+(t>=C_14)*(t<C_24)+C_34*(t>C_24)$$

  • case 5:

    5- Type Function: Half-plane-Linear $$c(t,x):= C_05*(1+max(C_15,x[0])/C_15) = 3*(1+max(R,x[0])/2)$$

break;

  • case 6: 6- Type Function: Half-plane-Exponential $$c(t,x):= C_06*exp(x[0]/C_16) = 18.2*exp(10*x[0])$$

  • case 7:

    7- Type Function: time-Exponential $$c(t,x):= C_07*exp(C_27*t) = 18.2*exp(0.2*t)$$

  • default:

    Otherwise Type Function: $$c(t,x):= Const = 3$$

The are of the experiment is
$(x_{min},x_{max})$
$(y_{min},y_{max})$

Constructor & Destructor Documentation

Funz_C::Funz_C ( )
Funz_C::Funz_C ( const Funz_C &  f)

Member Function Documentation

void Funz_C::all_informations ( std::ofstream &  file_save)
virtual

save information for the report

void Funz_C::get_coordinate ( std::array< double, 2 >  x,
int *  n 
)
virtual

set in which the rectangle (dx_n,dy_n) of the mesh of the domain the point x fells

Parameters
nis the array where the "coordinate" of the rectangle are saved
void Funz_C::get_coordinate1 ( std::array< double, 2 >  x,
int *  n 
)
virtual
void Funz_C::gnuplotFunC ( double  max_fc,
double  dt,
int  n_frames 
)

draw function c

void Funz_C::info_stat ( std::ofstream &  file_stat)
virtual

save info for the statistical analysis

Reimplemented in Funz_C_Par.

double Funz_C::new_F_C ( double  t,
std::array< double, 2 >  x 
)
virtual

return the value of Ligand concentration in the point x

Reimplemented in Funz_C_Par, and Funz_C_Inter.

void Funz_C::preview_F_C ( )
virtual

previw of the dynamics of the ligand concentration (non-interacting case)

void Funz_C::print_fc ( std::ofstream &  file_save,
double  t 
)
virtual

save the mesh and relative value of Ligand in a file to draw with gnuplot

Reimplemented in Funz_C_Inter.

void Funz_C::print_info ( std::ofstream &  file_save)
virtual

similar to all_information

Reimplemented in Funz_C_Par, and Funz_C_Inter.

void Funz_C::read_info_stat ( int  fchange_par,
std::ifstream &  file_stat,
std::streampos &  posizion 
)
virtual

read parameters from file

Reimplemented in Funz_C_Par.

void Funz_C::reset_parameter ( )

reset parameters to the default

void Funz_C::set_parameter ( )
virtual

set parameters of the ligand concentration in the Funz_C, you can choose the type of function and the dimantion of the rectangular area of the experiment

Reimplemented in Funz_C_Par, and Funz_C_Inter.

Friends And Related Function Documentation

double Histogram_3D_FunzC ( Funz_C *  f,
double  dt,
int  n_frame_max 
)
friend

create hystogram for the preview

Function to create the histogram for the function c, it is used to PREVIEW LIGAND CONCENTRATION. (void Funz_C::preview_F_C())

Member Data Documentation

int Funz_C::change_par

variable which track if the parameters has been changed: one might change int into boolean, 1 = change

double Funz_C::D_c

Diffusion coefficient: used in the interacting model

double Funz_C::degradation_rate

degradation rate of ligand see model in the population interacting with the ligand case

double Funz_C::dx

size-step mesh x direction

double Funz_C::dy

size-step mesh y direction

double** Funz_C::f_c

pointer to a matrix(n_x,n_y) with the value of the function: it is used to solve the PDE in the interacting case

int Funz_C::interact

== 0 se program interacting particles

double Funz_C::max_x

size of the area of the experiment

double Funz_C::max_y
double Funz_C::min_x
double Funz_C::min_y
int Funz_C::n_x

number od point in the mesh in the x direction (for interacting case)

int Funz_C::n_y

number od point in the mesh in the y direction (for interacting case)

int Funz_C::num_funz = 9
static

type of function c in the avaliable list

double** Funz_C::q_c

pointer to a matrix(n_x,n_y) with the value of the sorce: it is used to solve the PDE in the interacting case

The documentation for this class was generated from the following files: