#include "extra.h"
#include "Pause.h"
#include "mmio.h"
#include <cmath>

Defines
#define	EXTRA_CPP
Functions
int	WriteMatrixMarket_ADOLCInput (string s_postfix, int i_mode,...)
	Write out to the file ADOLC Input using Matrix Market format.
int	displayGraph (map< int, map< int, bool > > graph, vector< int > vi_VertexColors, int i_RunInBackground, int filter)
int	buildDotWithoutColor (map< int, map< int, bool > > *graph, vector< string > &ListOfColors, string fileName)
int	buildDotWithColor (map< int, map< int, bool > > graph, vector< int > vi_VertexColors, vector< string > &ListOfColors, string fileName)
int	ConvertHarwellBoeingDouble (string &num_string)
	Convert a number string under Harwell-Boeing format to the format that C++ can understand.
string	itoa (int i)
vector< string >	getListOfColors (string s_InputFile)
int	buildDotWithoutColor (ColPack::BipartiteGraphPartialColoringInterface &g, vector< string > &ListOfColors, string fileName)
int	buildDotWithColor (ColPack::BipartiteGraphPartialColoringInterface &g, vector< string > &ListOfColors, string fileName)
int	buildDotWithoutColor (ColPack::BipartiteGraphBicoloringInterface &g, vector< string > &ListOfColors, string fileName)
int	buildDotWithColor (ColPack::BipartiteGraphBicoloringInterface &g, vector< string > &ListOfColors, string fileName)
int	buildDotWithoutColor (ColPack::GraphColoringInterface &g, vector< string > &ListOfColors, string fileName)
int	buildDotWithColor (ColPack::GraphColoringInterface &g, vector< string > &ListOfColors, string fileName)
	Build dot file with colors, also highlight StarColoringConflicts.
bool	isValidOrdering (vector< int > &ordering, int offset)
	Test and make sure that this is a valid ordering.
int	ReadRowCompressedFormat (string s_InputFile, unsigned int ***uip3_SparsityPattern, int &rowCount, int &columnCount)
	Read a Row Compressed Format file.
int	ConvertRowCompressedFormat2SparseSolversFormat_StructureOnly (unsigned int uip2_HessianSparsityPattern, unsigned int ui_rowCount, unsigned int ip2_RowIndex, unsigned int **ip2_ColumnIndex)
	Build the index struture from Row Compressed Format to Sparse Solvers Format.
int	ConvertCoordinateFormat2RowCompressedFormat (unsigned int uip1_RowIndex, unsigned int uip1_ColumnIndex, double dp1_HessianValue, int i_RowCount, int i_NonZeroCount, unsigned int dp3_Pattern, double *dp3_Values)
	Convert Coordinate Format to Row Compressed Format.
void	ConvertFileDIMACSFormat2MatrixMarketFormat (string fileNameNoExt)
	Covert file with DIMACS format to Matrix Market format.
void	randomOrdering (vector< int > &ordering)
string	toUpper (string input)
	Convert all the characters in input to upper case, ' ', '\ t', '\ n' will be converted to '_'.
int	Times2Plus1point5 (double **dp2_Values, int i_RowCount, int i_ColumnCount)
	just manipulate the value of dp2_Values a little bit. Each non-zero entry in the matrix * 2 + 1.5.
int	Times2 (double **dp2_Values, int i_RowCount, int i_ColumnCount)
	just manipulate the value of dp2_Values a little bit. Each non-zero entry in the matrix * 2.
int	GenerateValues (unsigned int uip2_SparsityPattern, int rowCount, double *dp3_Value)
	Allocate memory and generate random values for dp3_Value.
int	GenerateValuesForSymmetricMatrix (unsigned int uip2_SparsityPattern, int rowCount, double *dp3_Value)
	Allocate memory and generate random values for dp3_Value of a Symmetric Matrix.
int	ConvertRowCompressedFormat2ADIC (unsigned int uip2_SparsityPattern_RowCompressedFormat, int i_rowCount, double dp2_Value, std::list< std::set< int > > &lsi_valsetlist, std::list< std::vector< double > > &lvd_Value)
int	ConvertRowCompressedFormat2CSR (unsigned int uip2_SparsityPattern_RowCompressedFormat, int i_rowCount, int ip_RowIndex, int **ip_ColumnIndex)
	Convert Row Compressed format (used by ADOL-C) to zero-based indexing, 3-array variation CSR format (used by ADIC)
int	ConvertMatrixMarketFormat2RowCompressedFormat (string s_InputFile, unsigned int *uip3_SparsityPattern, double *dp3_Value, int &rowCount, int &columnCount)
	Read the sparse matrix from Matrix-Market-format file and convert to Row Compressed format (used by ADIC) "uip3_SparsityPattern" & "dp3_Value".
int	MatrixMultiplication_VxS__usingVertexPartialColors (std::list< std::set< int > > &lsi_SparsityPattern, std::list< std::vector< double > > &lvd_Value, int columnCount, vector< int > &vi_VertexPartialColors, int colorCount, double ***dp3_CompressedMatrix)
int	MatrixMultiplication_VxS (unsigned int uip3_SparsityPattern, double dp3_Value, int rowCount, int columnCount, double dp2_seed, int colorCount, double *dp3_CompressedMatrix)
	Multiply the original sparse matrix (uip3_SparsityPattern,dp3_Value) (in compress sparse row format) with the seed matrix dp2_seed and store the result in "dp3_CompressedMatrix".
int	MatrixMultiplication_SxV (unsigned int uip3_SparsityPattern, double dp3_Value, int rowCount, int columnCount, double dp2_seed, int colorCount, double *dp3_CompressedMatrix)
	Multiply the seed matrix dp2_seed with the original sparse matrix (uip3_SparsityPattern,dp3_Value) (in compress sparse row format) and store the result in "dp3_CompressedMatrix".
bool	ADICMatricesAreEqual (std::list< std::vector< double > > &lvd_Value, std::list< std::vector< double > > &lvd_NewValue, bool compare_exact, bool print_all)
bool	CompressedRowMatricesAreEqual (double dp3_Value, double dp3_NewValue, int rowCount, bool compare_exact, bool print_all)
	Compare dp3_Value with dp3_NewValue and see if all the values are equal.
int	DisplayADICFormat_Sparsity (std::list< std::set< int > > &lsi_valsetlist)
int	DisplayADICFormat_Value (std::list< std::vector< double > > &lvd_Value)

Define Documentation

#define EXTRA_CPP

Definition at line 22 of file extra.cpp.

Function Documentation

bool ADICMatricesAreEqual	(	std::list< std::vector< double > > &	lvd_Value,
		std::list< std::vector< double > > &	lvd_NewValue,
		bool	compare_exact,
		bool	print_all
	)

Definition at line 1310 of file extra.cpp.

Referenced by main().

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int buildDotWithColor	(	map< int, map< int, bool > > *	graph,
		vector< int > *	vi_VertexColors,
		vector< string > &	ListOfColors,
		string	fileName
	)

Definition at line 267 of file extra.cpp.

References _UNKNOWN, and itoa().

Referenced by displayGraph().

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int buildDotWithColor	(	ColPack::BipartiteGraphPartialColoringInterface &	g,
		vector< string > &	ListOfColors,
		string	fileName
	)

Definition at line 421 of file extra.cpp.

References ColPack::BipartiteGraphCore::GetEdges(), ColPack::BipartiteGraphPartialColoring::GetLeftVertexColors(), ColPack::BipartiteGraphCore::GetLeftVertices(), ColPack::BipartiteGraphPartialColoring::GetRightVertexColors(), ColPack::BipartiteGraphCore::GetRightVertexCount(), itoa(), and STEP_DOWN.

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int buildDotWithColor	(	ColPack::BipartiteGraphBicoloringInterface &	g,
		vector< string > &	ListOfColors,
		string	fileName
	)

Definition at line 562 of file extra.cpp.

References Pause().

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int buildDotWithColor	(	ColPack::GraphColoringInterface &	g,
		vector< string > &	ListOfColors,
		string	fileName
	)

Build dot file with colors, also highlight StarColoringConflicts.

!!! TO DO: improve this function so that it can detect conflicts of all coloring types

Definition at line 608 of file extra.cpp.

References _UNKNOWN, ColPack::GraphCore::GetEdges(), ColPack::GraphColoring::GetStarColoringConflicts(), ColPack::GraphColoring::GetVertexColors(), ColPack::GraphCore::GetVertices(), itoa(), and STEP_DOWN.

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int buildDotWithoutColor	(	map< int, map< int, bool > > *	graph,
		vector< string > &	ListOfColors,
		string	fileName
	)

Definition at line 231 of file extra.cpp.

References itoa().

Referenced by displayGraph().

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int buildDotWithoutColor	(	ColPack::BipartiteGraphPartialColoringInterface &	g,
		vector< string > &	ListOfColors,
		string	fileName
	)

Definition at line 384 of file extra.cpp.

References ColPack::BipartiteGraphCore::GetEdges(), ColPack::BipartiteGraphCore::GetLeftVertices(), itoa(), and STEP_DOWN.

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int buildDotWithoutColor	(	ColPack::BipartiteGraphBicoloringInterface &	g,
		vector< string > &	ListOfColors,
		string	fileName
	)

Definition at line 556 of file extra.cpp.

References Pause().

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int buildDotWithoutColor	(	ColPack::GraphColoringInterface &	g,
		vector< string > &	ListOfColors,
		string	fileName
	)

Definition at line 570 of file extra.cpp.

References ColPack::GraphCore::GetEdges(), ColPack::GraphCore::GetVertices(), itoa(), and STEP_DOWN.

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bool CompressedRowMatricesAreEqual	(	double **	dp3_Value,
		double **	dp3_NewValue,
		int	rowCount,
		bool	compare_exact = `1`,
		bool	print_all = `0`
	)

Compare dp3_Value with dp3_NewValue and see if all the values are equal.

If (compare_exact == 0) num1 and num2 are consider equal if 0.99 <= num1/num2 <= 1.02 If (print_all == 1) all cases of non-equal will be print out. Normally (when print_all == 0), this rountine will stop after the first non-equal.

Definition at line 1371 of file extra.cpp.

Referenced by main().

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int ConvertCoordinateFormat2RowCompressedFormat	(	unsigned int *	uip1_RowIndex,
		unsigned int *	uip1_ColumnIndex,
		double *	dp1_HessianValue,
		int	i_RowCount,
		int	i_NonZeroCount,
		unsigned int ***	dp3_Pattern,
		double ***	dp3_Values
	)

Convert Coordinate Format to Row Compressed Format.

dp3_Pattern and dp3_Values will be allocated memory (using malloc) and populated with the matrix structure in Row Compressed Format

Input: (Coordinate Format)

unsigned int* uip1_RowIndex
unsigned int* uip1_ColumnIndex
double* dp1_HessianValue
int i_RowCount: number of rows of the matrix
int i_ColumnCount: number of columns of the matrix

Output: (Row Compressed Format)

unsigned int *** dp3_Pattern
double*** dp3_Values

Definition at line 836 of file extra.cpp.

Referenced by ColPack::HessianRecovery::IndirectRecover_CoordinateFormat_unmanaged().

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void ConvertFileDIMACSFormat2MatrixMarketFormat ( string fileNameNoExt )

Covert file with DIMACS format to Matrix Market format.

DIMACS graph format: http://www.dis.uniroma1.it/~challenge9/format.shtml#graph Note: DIMACS graph format is for directed graph => the equivalent matrix is squared and non-systemic

Read input from file "<fileNameNoExt>.gr" (DIMACS graph format) and generate file "<fileNameNoExt>.mtx" (Matrix Market format)

Definition at line 878 of file extra.cpp.

int ConvertHarwellBoeingDouble ( string & num_string )

Convert a number string under Harwell-Boeing format to the format that C++ can understand.

For example: -6.310289677458059D-07 to -6.310289677458059E-07

Essentially, this function just search backward for the letter D and replace it with E

Return value:

0 if letter D is not found
1 if latter D is found and replace by letter E

Definition at line 343 of file extra.cpp.

Referenced by ColPack::GraphInputOutput::ReadHarwellBoeingAdjacencyGraph().

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int ConvertMatrixMarketFormat2RowCompressedFormat	(	string	s_InputFile,
		unsigned int ***	uip3_SparsityPattern,
		double ***	dp3_Value,
		int &	rowCount,
		int &	columnCount
	)

Read the sparse matrix from Matrix-Market-format file and convert to Row Compressed format (used by ADIC) "uip3_SparsityPattern" & "dp3_Value".

Read in a matrix from matrix-market format file and create a matrix stored in compressed sparse row format The Matrix-Market-format has 3 values in each row, the row index, column index and numerical value of each nonzero. The last 4 parameters of this routine are output parameters (unsigned int *** uip3_SparsityPattern, double*** dp3_Value,int &rowCount, int &columnCount)

Definition at line 1046 of file extra.cpp.

References ColPack::f(), mm_is_coordinate, mm_is_general, mm_is_integer, mm_is_pattern, mm_is_real, mm_is_symmetric, mm_read_banner(), mm_typecode_to_str(), and Pause().

Referenced by main().

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int ConvertRowCompressedFormat2ADIC	(	unsigned int **	uip2_SparsityPattern_RowCompressedFormat,
		int	i_rowCount,
		double **	dp2_Value,
		std::list< std::set< int > > &	lsi_valsetlist,
		std::list< std::vector< double > > &	lvd_Value
	)

Definition at line 1000 of file extra.cpp.

Referenced by main().

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int ConvertRowCompressedFormat2CSR	(	unsigned int **	uip2_SparsityPattern_RowCompressedFormat,
		int	i_rowCount,
		int **	ip_RowIndex,
		int **	ip_ColumnIndex
	)

Convert Row Compressed format (used by ADOL-C) to zero-based indexing, 3-array variation CSR format (used by ADIC)

Return 0 upon successful.

Definition at line 1016 of file extra.cpp.

Referenced by main().

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int ConvertRowCompressedFormat2SparseSolversFormat_StructureOnly	(	unsigned int **	uip2_HessianSparsityPattern,
		unsigned int	ui_rowCount,
		unsigned int **	ip2_RowIndex,
		unsigned int **	ip2_ColumnIndex
	)

Build the index struture from Row Compressed Format to Sparse Solvers Format.

ip2_RowIndex and ip2_ColumnIndex will be allocated memory (using malloc) and populated with the matrix structure in Sparse Solvers Format

Input:

uip2_HessianSparsityPattern in Row Compressed Format
ui_rowCount

Output:

ip2_RowIndex[ui_rowCount + 1] for Sparse Solvers Format
ip2_ColumnIndex[ ip2_RowIndex[ui_rowCount] - 1] for Sparse Solvers Format

Definition at line 798 of file extra.cpp.

References Pause().

Referenced by ColPack::HessianRecovery::DirectRecover_SparseSolversFormat_unmanaged(), and ColPack::HessianRecovery::IndirectRecover_SparseSolversFormat_unmanaged().

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int DisplayADICFormat_Sparsity ( std::list< std::set< int > > & lsi_valsetlist )

Definition at line 1432 of file extra.cpp.

Referenced by main().

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int DisplayADICFormat_Value ( std::list< std::vector< double > > & lvd_Value )

Definition at line 1458 of file extra.cpp.

Referenced by main().

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int displayGraph	(	map< int, map< int, bool > > *	graph,
		vector< int > *	vi_VertexColors,
		int	i_RunInBackground,
		int	filter
	)

Definition at line 198 of file extra.cpp.

References buildDotWithColor(), buildDotWithoutColor(), CIRCO, FDP, getListOfColors(), itoa(), NEATO, and TWOPI.

Referenced by ColPack::GraphColoring::BuildStarFromColorCombination_forChecking().

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int GenerateValues	(	unsigned int **	uip2_SparsityPattern,
		int	rowCount,
		double ***	dp3_Value
	)

Allocate memory and generate random values for dp3_Value.

Definition at line 955 of file extra.cpp.

int GenerateValuesForSymmetricMatrix	(	unsigned int **	uip2_SparsityPattern,
		int	rowCount,
		double ***	dp3_Value
	)

Allocate memory and generate random values for dp3_Value of a Symmetric Matrix.

Definition at line 973 of file extra.cpp.

vector<string> getListOfColors ( string s_InputFile )

Definition at line 362 of file extra.cpp.

Referenced by displayGraph().

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bool isValidOrdering	(	vector< int > &	ordering,
		int	offset = `0`
	)

Test and make sure that this is a valid ordering.

This routine will test for:

Duplicated vertices. If there is no duplicated vertex, this ordering is probably ok.
Invalid vertex #. The vertex # should be between 0 and ordering.size()

Definition at line 716 of file extra.cpp.

Referenced by ColPack::GraphOrdering::CheckVertexOrdering().

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string itoa ( int i )

Definition at line 353 of file extra.cpp.

Referenced by buildDotWithColor(), buildDotWithoutColor(), and displayGraph().

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int MatrixMultiplication_SxV	(	unsigned int **	uip3_SparsityPattern,
		double **	dp3_Value,
		int	rowCount,
		int	columnCount,
		double **	dp2_seed,
		int	colorCount,
		double ***	dp3_CompressedMatrix
	)

Multiply the seed matrix dp2_seed with the original sparse matrix (uip3_SparsityPattern,dp3_Value) (in compress sparse row format) and store the result in "dp3_CompressedMatrix".

(*dp3_CompressedMatrix) = dp2_seed * (*dp3_Value)

Definition at line 1284 of file extra.cpp.

Referenced by main().

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int MatrixMultiplication_VxS	(	unsigned int **	uip3_SparsityPattern,
		double **	dp3_Value,
		int	rowCount,
		int	columnCount,
		double **	dp2_seed,
		int	colorCount,
		double ***	dp3_CompressedMatrix
	)

Multiply the original sparse matrix (uip3_SparsityPattern,dp3_Value) (in compress sparse row format) with the seed matrix dp2_seed and store the result in "dp3_CompressedMatrix".

(*dp3_CompressedMatrix) = (*dp3_Value) * dp2_seed

Definition at line 1246 of file extra.cpp.

References Pause().

Referenced by main().

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int MatrixMultiplication_VxS__usingVertexPartialColors	(	std::list< std::set< int > > &	lsi_SparsityPattern,
		std::list< std::vector< double > > &	lvd_Value,
		int	columnCount,
		vector< int > &	vi_VertexPartialColors,
		int	colorCount,
		double ***	dp3_CompressedMatrix
	)

Definition at line 1218 of file extra.cpp.

Referenced by main().

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void randomOrdering ( vector< int > & ordering )

Definition at line 909 of file extra.cpp.

Referenced by ColPack::BipartiteGraphPartialOrdering::ColumnRandomOrdering(), ColPack::BipartiteGraphOrdering::RandomOrdering(), ColPack::GraphOrdering::RandomOrdering(), and ColPack::BipartiteGraphPartialOrdering::RowRandomOrdering().

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int ReadRowCompressedFormat	(	string	s_InputFile,
		unsigned int ***	uip3_SparsityPattern,
		int &	rowCount,
		int &	columnCount
	)

Read a Row Compressed Format file.

Read a Row Compressed Format file Line 1: <# of rows> <# of columns> <# of non-zeros> Line 2-(# of non-zeros + 1): <# of non-zeros in that row> <index of the 1st non-zero> <index of the 2nd non-zero> ... <index of the (# of non-zeros in that row)th non-zero>

Definition at line 740 of file extra.cpp.

int Times2	(	double **	dp2_Values,
		int	i_RowCount,
		int	i_ColumnCount
	)

just manipulate the value of dp2_Values a little bit. Each non-zero entry in the matrix * 2.

Definition at line 945 of file extra.cpp.

int Times2Plus1point5	(	double **	dp2_Values,
		int	i_RowCount,
		int	i_ColumnCount
	)

just manipulate the value of dp2_Values a little bit. Each non-zero entry in the matrix * 2 + 1.5.

Definition at line 936 of file extra.cpp.

string toUpper ( string input )

Convert all the characters in input to upper case, ' ', '\ t', '\ n' will be converted to '_'.

Definition at line 920 of file extra.cpp.

Referenced by ColPack::BipartiteGraphBicoloringInterface::Bicoloring(), ColPack::BipartiteGraphOrdering::OrderVertices(), ColPack::BipartiteGraphPartialOrdering::OrderVertices(), ColPack::GraphOrdering::OrderVertices(), and ColPack::BipartiteGraphPartialColoringInterface::PartialDistanceTwoColoring().

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int WriteMatrixMarket_ADOLCInput	(	string	s_postfix,
		int	i_mode,
			...
	)

Write out to the file ADOLC Input using Matrix Market format.

Input parameters:

string s_postfix: postfix of the output file name
int i_mode:
- i_mode == 0: output the structure of the matrix only. The next 3 parameter(s) are: unsigned int ** uip2_SparsityPattern, int i_Matrix_Row, int i_Matrix_Col
- i_mode == 1: output the structure of the matrix and values in the Compressed Matrix The next 6 parameter(s) are: unsigned int ** uip2_SparsityPattern, int i_Matrix_Row, int i_Matrix_Col, double** dp2_CompressedMatrix, int i_CompressedMatrix_Row, int i_CompressedMatrix_Col
- i_mode == 2: output the structure and values of the matrix and values in the Compressed Matrix The next 7 parameter(s) are: unsigned int ** uip2_SparsityPattern, int i_Matrix_Row, int i_Matrix_Col, double** dp2_CompressedMatrix, int i_CompressedMatrix_Row, int i_CompressedMatrix_Col, double** dp2_Values

Definition at line 29 of file extra.cpp.

Referenced by ColPack::GraphColoringInterface::GraphColoringInterface(), and ColPack::HessianRecovery::IndirectRecover_CoordinateFormat_unmanaged().

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Defines

Functions

Define Documentation

Function Documentation