NodeList.cpp File Reference

#include <assert.h>
#include <stdio.h>
#include "NodeList.h"
#include <algorithm>
#include <cstring>
#include <typeinfo>

Defines
#define	_LARGEFILE_SOURCE
#define	_LARGEFILE64_SOURCE
Enumerations
enum	nodeType {   UNDEF, IN, OUT, BOOLEAN,   MUTANT, ANALPTS, DELAY, SUSTAIN,   RUNTIME, NOISE, COMMENT }
Functions
void	readLine (istream &in)
bool	isEmpty ()
bool	isEOF (istream &in)
char	readChar (istream &in)
string	readWord (istream &in, char &terminator)
void	skipLine (istream &in)
nodeType	readType (istream &in)
string	readName (istream &in)
int	readValue (istream &in, char &t)
float	readFloat (istream &in)
bool	readInitial (string &src, string &inputStr)
bool	readInitial (string &init)
string	readInitialSrc (istream &in)
int	readSource (istream &in, NodeList &nl, int &source)
bool	readMutant (istream &in, NodeList &nl, string &mutant)
int	readDecision (istream &in, int &decision)
void	setRandInputs (InputNode &n, NodeList &nl)
void	readAnalPts (istream &in, NodeList &nl)
bool	readParams (istream &in, InputNode &n, bool random, NodeList &nl)
istream &	operator>> (istream &in, NodeList &nl)
int	getWord (FILE *in, char *buf, int &index, string &str, char tok, bool alphaOnly)
Variables
char	line [1000000000]
int	offset = 100000000

---

Define Documentation

#define _LARGEFILE64_SOURCE

#define _LARGEFILE_SOURCE

Copyright (C) 2004-2008 Tomas Helikar & Mathbio Research Group, Department of Mathematics, University of Nebraska at Omaha

This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License version 2, as published by the Free Software Foundation.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with this program; if not, write to the Free Software Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA

---

Enumeration Type Documentation

enum nodeType

Enumerator:

UNDEF
IN
OUT
BOOLEAN
MUTANT
ANALPTS
DELAY
SUSTAIN
RUNTIME
NOISE
COMMENT

---

Function Documentation

int getWord	(	FILE *	in,
		char *	buf,
		int &	index,
		string &	str,
		char	tok,
		bool	alphaOnly
	)

bool isEmpty

(

)

Test if line is exhausted

bool isEOF

(

istream &

in

)

Test if input is exhausted

istream& operator>>	(	istream &	in,
		NodeList &	nl
	)

Reads in an Inputfile and sets up the network based on that file

void readAnalPts	(	istream &	in,
		NodeList &	nl
	)

Read points of output analysis

char readChar

(

istream &

in

)

Read a character from the working buffer

int readDecision	(	istream &	in,
		int &	decision
	)

Read a decision table: a string of T and F characters

float readFloat

(

istream &

in

)

Read in a float value

bool readInitial

(

string &

init

)

Read the intial value for a chemical node: either True or False

bool readInitial	(	string &	src,
		string &	inputStr
	)

Read the intial value for a chemical node: either True or False

string readInitialSrc

(

istream &

in

)

Read the intial value for a chemical node: either True or False

void readLine

(

istream &

in

)

Read a line from the working buffer

bool readMutant	(	istream &	in,
		NodeList &	nl,
		string &	mutant
	)

read a word into string & mutant and return true if istream is empty

string readName

(

istream &

in

)

Read in a chemical node name and return the name

bool readParams	(	istream &	in,
		InputNode &	n,
		bool	random,
		NodeList &	nl
	)

Reads the start, dosage, and duration from the instream for an InputNode (Tomas Helikar 9/26/05)

int readSource	(	istream &	in,
		NodeList &	nl,
		int &	source
	)

Read in a chemical node name, locate and return its index

nodeType readType

(

istream &

in

)

Read in the line type

int readValue	(	istream &	in,
		char &	t
	)

Read in an integer value

string readWord	(	istream &	in,
		char &	terminator
	)

Read in a single word, deliminated by either ':', ",", or "\n"

void setRandInputs	(	InputNode &	n,
		NodeList &	nl
	)

Comment to be written, function not in use

void skipLine

(

istream &

in

)

The remainder of the input line is read and discarded.

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Variable Documentation

char line[1000000000]

int offset = 100000000