Options Class Reference

#include <options.h>

Public Member Functions
	Options ()
	Options (string config_fname)
void	load (string config_fname)
void	print ()
void	print_to_file (ostream &out)
int	get_max_rk_cands ()
int	get_max_efm_cands ()
int	get_max_reac_subset_length ()
string	get_algorithm ()
string	get_network_capacity ()
string	get_efm_bit_fname ()
string	get_efm_meta_fname ()
string	get_output_fname ()
string	get_yields_fname ()
string	get_config_fname ()
string	get_use_xchg_reacs ()
vector< string > &	get_init_knock_reacs ()
vector< string > &	get_target_reacs ()
vector< string > &	get_substrate_reacs ()
vector< string > &	get_transport_reacs ()
vector< double > &	get_min_yields ()
vector< double > &	get_min_core_yields ()
void	load_efm_meta_file (vector< vector< double > > &stoich, vector< string > &reacs_names, t_UnsignedInt &num_ems)
Private Attributes
string	config_fname
string	efm_bit_fname
string	efm_meta_fname
string	output_fname
string	yields_fname
vector< string >	init_knock_reacs
vector< string >	target_reacs
vector< string >	substrate_reacs
vector< string >	transport_reacs
vector< double >	min_yields
vector< double >	min_core_yields
string	use_xchg_reacs
int	max_efm_cands
int	max_rk_cands
int	max_reac_subset_length
string	algorithm
string	network_capacity

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Detailed Description

Definition at line 14 of file options.h.

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Constructor & Destructor Documentation

Options::Options

(

)

[inline]

Definition at line 33 of file options.h.

Options::Options

(

string

config_fname

)

Definition at line 28 of file options.cpp.

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Member Function Documentation

string Options::get_algorithm

(

)

[inline]

Definition at line 43 of file options.h.

string Options::get_config_fname

(

)

[inline]

Definition at line 50 of file options.h.

string Options::get_efm_bit_fname

(

)

[inline]

Definition at line 46 of file options.h.

string Options::get_efm_meta_fname

(

)

[inline]

Definition at line 47 of file options.h.

vector<string>& Options::get_init_knock_reacs

(

)

[inline]

Definition at line 54 of file options.h.

int Options::get_max_efm_cands

(

)

[inline]

Definition at line 40 of file options.h.

int Options::get_max_reac_subset_length

(

)

[inline]

Definition at line 41 of file options.h.

int Options::get_max_rk_cands

(

)

[inline]

Definition at line 39 of file options.h.

vector<double>& Options::get_min_core_yields

(

)

[inline]

Definition at line 59 of file options.h.

vector<double>& Options::get_min_yields

(

)

[inline]

Definition at line 58 of file options.h.

string Options::get_network_capacity

(

)

[inline]

Definition at line 44 of file options.h.

string Options::get_output_fname

(

)

[inline]

Definition at line 48 of file options.h.

vector<string>& Options::get_substrate_reacs

(

)

[inline]

Definition at line 56 of file options.h.

vector<string>& Options::get_target_reacs

(

)

[inline]

Definition at line 55 of file options.h.

vector<string>& Options::get_transport_reacs

(

)

[inline]

Definition at line 57 of file options.h.

string Options::get_use_xchg_reacs

(

)

[inline]

Definition at line 52 of file options.h.

string Options::get_yields_fname

(

)

[inline]

Definition at line 49 of file options.h.

void Options::load

(

string

config_fname

)

Definition at line 33 of file options.cpp.

void Options::load_efm_meta_file	(	vector< vector< double > > &	stoich,
		vector< string > &	reacs_names,
		t_UnsignedInt &	num_ems
	)

Definition at line 318 of file options.cpp.

void Options::print

(

)

Definition at line 254 of file options.cpp.

void Options::print_to_file

(

ostream &

out

)

Definition at line 437 of file options.cpp.

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Field Documentation

string Options::algorithm [private]

Definition at line 30 of file options.h.

string Options::config_fname [private]

Definition at line 17 of file options.h.

string Options::efm_bit_fname [private]

Definition at line 18 of file options.h.

string Options::efm_meta_fname [private]

Definition at line 19 of file options.h.

vector<string> Options::init_knock_reacs [private]

Definition at line 22 of file options.h.

int Options::max_efm_cands [private]

Definition at line 29 of file options.h.

int Options::max_reac_subset_length [private]

Definition at line 29 of file options.h.

int Options::max_rk_cands [private]

Definition at line 29 of file options.h.

vector<double> Options::min_core_yields [private]

Definition at line 27 of file options.h.

vector<double> Options::min_yields [private]

Definition at line 26 of file options.h.

string Options::network_capacity [private]

Definition at line 31 of file options.h.

string Options::output_fname [private]

Definition at line 20 of file options.h.

vector<string> Options::substrate_reacs [private]

Definition at line 24 of file options.h.

vector<string> Options::target_reacs [private]

Definition at line 23 of file options.h.

vector<string> Options::transport_reacs [private]

Definition at line 25 of file options.h.

string Options::use_xchg_reacs [private]

Definition at line 28 of file options.h.

string Options::yields_fname [private]

Definition at line 21 of file options.h.

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

• options.h
• options.cpp