atio.hpp File Reference

Input, output and conversion routines. More...

#include <vector>
#include <Eigen/Dense>
#include <Eigen/Sparse>
#include <gsl/gsl_vector.h>
#include <gsl/gsl_matrix.h>

Go to the source code of this file.

Typedefs
typedef Eigen::SparseMatrix< double, Eigen::RowMajor >	SpMatCSR
	Eigen sparse CSR matrix of double type.
typedef Eigen::SparseMatrix< double, Eigen::ColMajor >	SpMatCSC
	Eigen sparse CSC matrix of double type.
typedef Eigen::Triplet< double >	Tri
	Eigen triplet of double.

Functions
void	Eigen2Pajek (FILE *fp, const SpMatCSR *P, const char *dataFormat="%lf")
	Print an Eigen CSR matrix in Pajek format. More...
void	Eigen2Compressed (FILE *fp, const SpMatCSC *P, const char *dataFormat="%lf")
	Print an Eigen CSC matrix to file in compressed format. More...
void	Eigen2Compressed (FILE *fp, const SpMatCSR *P, const char *dataFormat="%lf")
	Print an Eigen CSR matrix to file in compressed format. More...
SpMatCSC *	pajek2Eigen (FILE *fp, const char *dataFormat="%lf")
	Scans an Eigen CSC matrix from a Pajek file. More...
SpMatCSR *	Compressed2Eigen (FILE *fp, const char *dataFormat="%lf")
	Scan an Eigen CSR matrix from a file in compressed format. More...
gsl_matrix *	Compressed2EdgeList (FILE *fp, const char *dataFormat="%lf")
	Scan an edge list from a file in compressed format. More...
void	Compressed2EdgeList (FILE *src, FILE *dst, const char *dataFormat="%lf")
	Print and edge list to a file in compressed format. More...
SpMatCSR *	CSC2CSR (const SpMatCSC *T)
	Convert an Eigen CSC matrix to an Eigen CSR matrix. More...
SpMatCSC *	CSR2CSC (const SpMatCSR *T)
	Convert an Eigen CSR matrix to an Eigen CSC matrix. More...
std::vector< Tri >	Eigen2Triplet (const SpMatCSC *T)
	Convert an Eigen CSC matrix to a vector of Eigen triplet. More...
std::vector< Tri >	Eigen2Triplet (const SpMatCSR *T)
	Convert an Eigen CSR matrix to a vector of Eigen triplet. More...
void	fprintfEigen (FILE *fp, const SpMatCSR *T, const char *dataFormat)
	Print an Eigen CSR matrix as a dense matrix. More...
size_t	lineCount (FILE *fp)
	Count the number of lines in a file. More...

Detailed Description

ATSuite input, output and conversion routines between various matrices types.

Sparse matrices are printed in the following ascii compressed format:

1. a header with the matrix type ("CSR" or "CSC"), inner size, outer size and number of nonzero elements,
2. the data vector,
3. the indices vector,
4. the pointer vector.

Definition in file atio.hpp.

Function Documentation

gsl_matrix * Compressed2EdgeList	(	FILE *	fp,
		const char *	dataFormat = "%lf"
	)

Scan an edge list as a GSL matrix from a matrix file in compressed format (see atio.hpp documentation).

Parameters

[in]	fp	Descriptor of the file to which to scan.
[in]	dataFormat	Format in which to scan each matrix element.

Returns

Edge list as a GSL matrix

Definition at line 263 of file atio.hpp.

Referenced by Compressed2EdgeList().

void Compressed2EdgeList	(	FILE *	src,
		FILE *	dst,
		const char *	dataFormat = "%lf"
	)

Print an edge list to a matrix file in compressed format (see atio.hpp documentation).

Parameters

[in]	src	Descriptor of the file to which to scan in compressed matrix format.
[in]	dst	Descriptor of the file to which to print in edge list format.
[in]	dataFormat	Format in which to scan and print each matrix element.

Definition at line 325 of file atio.hpp.

References Compressed2EdgeList().

SpMatCSR * Compressed2Eigen	(	FILE *	fp,
		const char *	dataFormat = "%lf"
	)

Scan an Eigen CSR matrix from a matrix file in compressed format (see atio.hpp documentation).

Parameters

[in]	fp	Descriptor of the file to which to scan.
[in]	dataFormat	Format in which to scan each matrix element.

Returns

Scanned Eigen matrix.

Definition at line 207 of file atio.hpp.

SpMatCSR * CSC2CSR

(

const SpMatCSC *

T

)

Convert an Eigen CSC matrix to an Eigen CSR matrix.

Parameters

[in]

T

Eigen matrix from which to convert.

Returns

Eigen matrix converted.

Definition at line 349 of file atio.hpp.

References Eigen2Triplet().

SpMatCSC * CSR2CSC

(

const SpMatCSR *

T

)

Converts an Eigen CSR matrix to an Eigen CSC matrix.

Parameters

[in]

T

Eigen matrix from which to convert.

Returns

Eigen matrix converted.

Definition at line 372 of file atio.hpp.

References Eigen2Triplet().

Referenced by Eigen2AR(), and Eigen2ARSym().

void Eigen2Compressed	(	FILE *	fp,
		const SpMatCSC *	P,
		const char *	dataFormat = "%lf"
	)

Print an Eigen CSC matrix in compressed format (see atio.hpp documentation).

Parameters

[in]	fp	Descriptor of the file to which to print.
[in]	P	Eigen matrix to print.
[in]	dataFormat	Format in which to print each matrix element.

Definition at line 137 of file atio.hpp.

Referenced by transferOperator::printBackwardTransition(), and transferOperator::printForwardTransition().

void Eigen2Compressed	(	FILE *	fp,
		const SpMatCSR *	P,
		const char *	dataFormat = "%lf"
	)

Print an Eigen CSR matrix in compressed format (see atio.hpp documentation).

Parameters

[in]	fp	Descriptor of the file to which to print.
[in]	P	Eigen matrix to print.
[in]	dataFormat	Format in which to print each matrix element.

Definition at line 172 of file atio.hpp.

void Eigen2Pajek	(	FILE *	fp,
		const SpMatCSR *	P,
		const char *	dataFormat = "%lf"
	)

Print an Eigen CSR matrix in Pajek format (see Pajek documentation).

Parameters

[in]	fp	Descriptor of the file to which to print.
[in]	P	Eigen matrix to print.
[in]	dataFormat	Format in which to print each matrix element.

Definition at line 58 of file atio.hpp.

std::vector< Tri > Eigen2Triplet

(

const SpMatCSC *

T

)

Convert an Eigen CSC matrix to a vector of Eigen triplet.

Parameters

[in]

T

Eigen matrix from which to convert.

Returns

vector of Eigen triplet converted.

Definition at line 395 of file atio.hpp.

Referenced by CSC2CSR(), and CSR2CSC().

std::vector< Tri > Eigen2Triplet

(

const SpMatCSR *

T

)

Convert an Eigen CSR matrix to a vector of Eigen triplet.

Parameters

[in]

T

Eigen matrix from which to convert.

Returns

vector of Eigen triplet converted.

Definition at line 417 of file atio.hpp.

void fprintfEigen	(	FILE *	fp,
		const SpMatCSR *	T,
		const char *	dataFormat
	)

Print an Eigen CSR matrix as a dense matrix with zero elements marked as "---".

Parameters

[in]	fp	File to which to print.
[in]	T	Eigen matrix to print.
[in]	dataFormat	Format in which to print each matrix element.

Definition at line 440 of file atio.hpp.

size_t lineCount

(

FILE *

fp

)

Count the number of lines in a file.

Parameters

[in]

fp

File from which to count lines.

Returns

Number of lines in file.

Definition at line 471 of file atio.hpp.

SpMatCSC * pajek2Eigen	(	FILE *	fp,
		const char *	dataFormat = "%lf"
	)

Scans an Eigen CSC matrix from a Pajek file (see Pajek documentation).

Parameters

[in]	fp	Descriptor of the file to which to scan.
[in]	dataFormat	Format in which to print each matrix element.

Returns

Eigen matrix scanned.

Definition at line 90 of file atio.hpp.