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/* $Id: $
* ===========================================================================
*
* PUBLIC DOMAIN NOTICE
* National Center for Biotechnology Information
*
* This software/database is a "United States Government Work" under the
* terms of the United States Copyright Act. It was written as part of
* the author's offical duties as a United States Government employee and
* thus cannot be copyrighted. This software/database is freely available
* to the public for use. The National Library of Medicine and the U.S.
* Government have not placed any restriction on its use or reproduction.
*
* Although all reasonable efforts have been taken to ensure the accuracy
* and reliability of the software and data, the NLM and the U.S.
* Government do not and cannot warrant the performance or results that
* may be obtained by using this software or data. The NLM and the U.S.
* Government disclaim all warranties, express or implied, including
* warranties of performance, merchantability or fitness for any particular
* purpose.
*
* Please cite the author in any work or product based on this material.
*
* ===========================================================================*/
/*****************************************************************************
File name: sls_basic.cpp
Author: Sergey Sheetlin, Martin Frith
Contents: Some basic functions and types
******************************************************************************/
// 2016: this voodoo is needed to compile on Cygwin, with g++ options
// such as -std=c++11 or -std=c++03, else it complains about gettimeofday
#define _DEFAULT_SOURCE 1
#include "sls_basic.hpp"
#include <cstdlib> // std::abs
#include <ctime>
using namespace Sls;
double sls_basic::round(//returns nearest integer to x_
const double &x_)
{
double x_floor=floor(x_);
double x_ceil=ceil(x_);
if(fabs(x_-x_floor)<0.5)
{
return x_floor;
};
return x_ceil;
}
void sls_basic::get_current_time(
double &seconds_)
{
#ifndef _MSC_VER //UNIX program
struct timeval tv;
struct timezone tz;
gettimeofday(&tv, &tz);
seconds_=(double)(tv.tv_sec)+(double)(tv.tv_usec)/1000000.0;
#else
struct _timeb timebuffer;
_ftime( &timebuffer );
seconds_=timebuffer.time+(double)(timebuffer.millitm)/1000.0;
#endif
}
long int sls_basic::random_seed_from_time()
{
long int random_factor=(long int)std::time(NULL);
#ifndef _MSC_VER //UNIX program
struct timeval tv;
struct timezone tz;
gettimeofday(&tv, &tz);
random_factor+=tv.tv_usec*10000000;
#else
struct _timeb timebuffer;
char *timeline;
_ftime( &timebuffer );
timeline = ctime( & ( timebuffer.time ) );
random_factor+=timebuffer.millitm*10000000;
#endif
return std::abs(random_factor);
}
double sls_basic::one_minus_exp_function(
double y_)
{
if(fabs(y_)>1e-3)
{
return 1.0-exp(y_);
}
else
{
return -(y_*(120+y_*(60+y_*(20+y_*(5.0+y_))))/120.0);
};
}
double sls_basic::normal_probability(
double x_,
double eps_)
{
if(x_==0)
{
return 0.5;
};
eps_=Tmin(1.0,eps_);
double x_max=10*eps_+sqrt(Tmax(0.0,-2*log(eps_)));
if(x_>=x_max)
{
double x=x_/sqrt(2.0);
return 1-0.5*exp(-x*x)/(x*sqrt(pi))*(1-1.0/(2*x*2*x));
};
if(x_<=-x_max)
{
double x=x_/sqrt(2.0);
return 0.5*exp(-x*x)/(-x*sqrt(pi))*(1-1.0/(2*x*2*x));
};
double const_val=1/sqrt(2.0*pi);
long int N=(long int)round(fabs(x_)/eps_)+1;
double h=x_/(double)N;
double res=0;
long int i;
for(i=0;i<=N;i++)
{
double y=h*i;
double tmp=exp(-0.5*y*y);
if(i==0||i==N)
{
res+=0.5*tmp;
}
else
{
res+=tmp;
};
};
res*=h;
return 0.5+const_val*(res);
}
double sls_basic::normal_probability(
double a_,
double b_,
double h_,
long int N_,
double *p_,
double x_,
double eps_)
{
if(x_<a_||x_>b_)
{
return normal_probability(x_,eps_);
};
long int x_n=(long int)floor((x_-a_)/h_);
x_n=Tmin(N_-1,x_n);
return p_[x_n]+(p_[x_n+1]-p_[x_n])*(x_-(h_*x_n+a_))/h_;
}
double sls_basic::ln_one_minus_val(
double val_)
{
if(val_>1e-8)
{
return log(1-val_);
};
return -val_-val_*val_/2.0-val_*val_*val_/3.0;
}
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