#include <svkUCSFUtils.h>

Inheritance diagram for svkUCSFUtils:

Public Member Functions
	vtkTypeMacro (svkUCSFUtils, vtkObject)

Static Public Member Functions
static svkUCSFUtils *	New ()

static void	CreateMap ()
	Create the map from metabolite proper names to filenames. More...

static string	GetMetaboliteName (string fileName)
	Gets the name of a metabolite fore a given filename. More...

static string	GetMetaboliteDirectoryName (string spectraFileName)
	Gets the directory in which a metabolite file should reside. More...

static string	GetMetaboliteRoot (string spectraFileName)
	Gets the root name for a metabolite file. More...

static string	GetMetaboliteFileName (string spectraFileName, string metaboliteName, bool includePath=false)
	Get the filename for a given metabolite. More...

static string	GetMetabolitePostfix (string metaboliteName)
	Get the postfix for a given metabolite. More...

static string	GetMetaboliteFromPostfix (string postfixName)
	Get the metabolite name for a given postfix. More...

static vector< string >	GetAllMetaboliteNames ()
	Returns a liste of all metabolites in our hash. More...

static string	GetDICOMFileName (string fileName, svkDcmHeader *header)

static int	ReidentifyImages (string directory)
	Reidentify images in a given directory. More...

Static Public Attributes
static bool	mapCreated = false

static map< string, string >	metaboliteMap
	Maps metabolite names to file extentions. More...

Protected Member Functions
	svkUCSFUtils ()
	Constructor. More...

	~svkUCSFUtils ()
	Destructor. More...

Detailed Description

UCSF specific utilities.

Constructor & Destructor Documentation

svkUCSFUtils ( )

protected

Constructor.

~svkUCSFUtils ( )

protected

Destructor.

Member Function Documentation

void CreateMap ( )

static

Create the map from metabolite proper names to filenames.

Creates our hash.

TODO: Consider making the hash read from a text file so we don't have to recompile to add mappings

References svkUCSFUtils::mapCreated, and svkUCSFUtils::metaboliteMap.

Referenced by svkUCSFUtils::GetAllMetaboliteNames(), svkUCSFUtils::GetMetaboliteFromPostfix(), and svkUCSFUtils::GetMetabolitePostfix().

vector< string > GetAllMetaboliteNames ( )

static

Returns a liste of all metabolites in our hash.

Gets the names of all the metabolites in the current hash.

Returns: all the names in a vector of strings

References svkUCSFUtils::CreateMap(), svkUCSFUtils::mapCreated, and svkUCSFUtils::metaboliteMap.

string GetDICOMFileName	(	string	fileName,
		svkDcmHeader *	header
	)

static

References svkDcmHeader::GetIntValue(), and svkDcmHeader::GetStringValue().

string GetMetaboliteDirectoryName ( string spectraFileName )

static

Gets the directory in which a metabolite file should reside.

Method takes a spectra file name and determines the name of the directory in which it should reside.

Parameters

spectraFileName the name of the spectra file that you want to find the metabolite

References svkUCSFUtils::GetMetaboliteRoot().

Referenced by svkUCSFUtils::GetMetaboliteFileName().

string GetMetaboliteFileName	(	string	spectraFileName,
		string	metaboliteName,
		bool	includePath = `false`
	)

static

Get the filename for a given metabolite.

Method takes a spectra file name and determines the filename of a given metabolite for that spectra.

Parameters

spectraFileName	the name of the spectra file that you want to find the metabolite
metaboliteName	the metabolite name you are looking for
incluePath	should we include the name of the path in which the file should exist

References svkUCSFUtils::GetMetaboliteDirectoryName(), svkUCSFUtils::GetMetabolitePostfix(), and svkUCSFUtils::GetMetaboliteRoot().

string GetMetaboliteFromPostfix ( string postfixName )

static

Get the metabolite name for a given postfix.

Parameters

postfix for the name of the metabolite you are looking for

References svkUCSFUtils::CreateMap(), svkUCSFUtils::mapCreated, and svkUCSFUtils::metaboliteMap.

Referenced by svkUCSFUtils::GetMetaboliteName().

string GetMetaboliteName ( string fileName )

static

Gets the name of a metabolite fore a given filename.

Gets the metabolite name for a given metabolite file