SourceFile Class Reference

Description of a file location, used to store the origin of (meta) data. More...

#include <OpenMS/METADATA/SourceFile.h>

Inheritance diagram for SourceFile:

Collaboration diagram for SourceFile:

Public Types
enum	ChecksumType { UNKNOWN_CHECKSUM , SHA1 , MD5 , SIZE_OF_CHECKSUMTYPE }
	Type of the checksum. More...

Public Member Functions
	SourceFile ()
	Constructor. More...
	SourceFile (const SourceFile &)=default
	Copy constructor. More...
	SourceFile (SourceFile &&)=default
	Move constructor. More...
	~SourceFile () override
	Destructor. More...
SourceFile &	operator= (const SourceFile &)=default
	Assignment operator. More...
SourceFile &	operator= (SourceFile &&)=default
	Move assignment operator. More...
bool	operator== (const SourceFile &rhs) const
	Equality operator. More...
bool	operator!= (const SourceFile &rhs) const
	Equality operator. More...
const String &	getNameOfFile () const
	returns the file name More...
void	setNameOfFile (const String &name_of_file)
	sets the file name More...
const String &	getPathToFile () const
	returns the file path More...
void	setPathToFile (const String &path_path_to_file)
	sets the file path More...
float	getFileSize () const
	returns the file size in MB More...
void	setFileSize (float file_size)
	sets the file size in MB More...
const String &	getFileType () const
	returns the file type More...
void	setFileType (const String &file_type)
	sets the file type More...
const String &	getChecksum () const
	returns the file's checksum More...
void	setChecksum (const String &checksum, ChecksumType type)
	sets the file's checksum More...
ChecksumType	getChecksumType () const
	returns the checksum type More...
const String &	getNativeIDType () const
	Returns the native ID type of the spectra. More...
void	setNativeIDType (const String &type)
	Sets the native ID type of the spectra. More...
const String &	getNativeIDTypeAccession () const
	Returns the nativeID of the spectra. More...
void	setNativeIDTypeAccession (const String &accesssion)
	Sets the native ID of the spectra. More...
Public Member Functions inherited from CVTermList
	CVTermList ()=default
	Defaults constructor. More...
	CVTermList (const CVTermList &)=default
	Copy constructor. More...
	CVTermList (CVTermList &&) noexcept
	Move constructor. More...
virtual	~CVTermList ()
	Destructor. More...
CVTermList &	operator= (const CVTermList &rhs) &=default
	Assignment operator. More...
CVTermList &	operator= (CVTermList &&) &=default
	Move assignment operator. More...
void	setCVTerms (const std::vector< CVTerm > &terms)
	sets the CV terms More...
void	replaceCVTerm (const CVTerm &cv_term)
	replaces the specified CV term More...
void	replaceCVTerms (const std::vector< CVTerm > &cv_terms, const String &accession)
	replaces the specified CV terms using the given accession number More...
void	replaceCVTerms (const std::map< String, std::vector< CVTerm > > &cv_term_map)
	replaces all cv terms with a map (can be obtained via getCVTerms) More...
void	consumeCVTerms (const std::map< String, std::vector< CVTerm > > &cv_term_map)
	merges the given map into the member map, no duplicate checking More...
const std::map< String, std::vector< CVTerm > > &	getCVTerms () const
	returns the accession string of the term More...
void	addCVTerm (const CVTerm &term)
	adds a CV term More...
bool	operator== (const CVTermList &cv_term_list) const
	equality operator More...
bool	operator!= (const CVTermList &cv_term_list) const
	inequality operator More...
bool	hasCVTerm (const String &accession) const
	checks whether the term has a value More...
bool	empty () const
	return true if no terms are available More...
Public Member Functions inherited from MetaInfoInterface
	MetaInfoInterface ()
	Constructor. More...
	MetaInfoInterface (const MetaInfoInterface &rhs)
	Copy constructor. More...
	MetaInfoInterface (MetaInfoInterface &&) noexcept
	Move constructor. More...
	~MetaInfoInterface ()
	Destructor. More...
MetaInfoInterface &	operator= (const MetaInfoInterface &rhs)
	Assignment operator. More...
MetaInfoInterface &	operator= (MetaInfoInterface &&) noexcept
	Move assignment operator. More...
void	swap (MetaInfoInterface &rhs)
	Swap contents. More...
bool	operator== (const MetaInfoInterface &rhs) const
	Equality operator. More...
bool	operator!= (const MetaInfoInterface &rhs) const
	Equality operator. More...
const DataValue &	getMetaValue (const String &name) const
	Returns the value corresponding to a string, or DataValue::EMPTY if not found. More...
DataValue	getMetaValue (const String &name, const DataValue &default_value) const
	Returns the value corresponding to a string, or a default value (e.g.: DataValue::EMPTY) if not found. More...
const DataValue &	getMetaValue (UInt index) const
	Returns the value corresponding to the index, or DataValue::EMPTY if not found. More...
DataValue	getMetaValue (UInt index, const DataValue &default_value) const
	Returns the value corresponding to the index, or a default value (e.g.: DataValue::EMPTY) if not found. More...
bool	metaValueExists (const String &name) const
	Returns whether an entry with the given name exists. More...
bool	metaValueExists (UInt index) const
	Returns whether an entry with the given index exists. More...
void	setMetaValue (const String &name, const DataValue &value)
	Sets the DataValue corresponding to a name. More...
void	setMetaValue (UInt index, const DataValue &value)
	Sets the DataValue corresponding to an index. More...
void	removeMetaValue (const String &name)
	Removes the DataValue corresponding to name if it exists. More...
void	removeMetaValue (UInt index)
	Removes the DataValue corresponding to index if it exists. More...
void	addMetaValues (const MetaInfoInterface &from)
	function to copy all meta values from one object to this one More...
void	getKeys (std::vector< String > &keys) const
	Fills the given vector with a list of all keys for which a value is set. More...
void	getKeys (std::vector< UInt > &keys) const
	Fills the given vector with a list of all keys for which a value is set. More...
bool	isMetaEmpty () const
	Returns if the MetaInfo is empty. More...
void	clearMetaInfo ()
	Removes all meta values. More...

Static Public Attributes
static const std::string	NamesOfChecksumType [SIZE_OF_CHECKSUMTYPE]
	Names of checksum types. More...

Protected Attributes
String	name_of_file_
String	path_to_file_
double	file_size_
String	file_type_
String	checksum_
ChecksumType	checksum_type_ = SourceFile::ChecksumType::UNKNOWN_CHECKSUM
String	native_id_type_
String	native_id_type_accession_
Protected Attributes inherited from CVTermList
std::map< String, std::vector< CVTerm > >	cv_terms_
Protected Attributes inherited from MetaInfoInterface
MetaInfo *	meta_
	Pointer to the MetaInfo object (0 by default) More...

Additional Inherited Members
Static Public Member Functions inherited from MetaInfoInterface
static MetaInfoRegistry &	metaRegistry ()
	Returns a reference to the MetaInfoRegistry. More...
Protected Member Functions inherited from MetaInfoInterface
void	createIfNotExists_ ()
	Creates the MetaInfo object if it does not exist. More...

Detailed Description

Description of a file location, used to store the origin of (meta) data.

Member Enumeration Documentation

ChecksumType

enum ChecksumType

Type of the checksum.

Enumerator
UNKNOWN_CHECKSUM	Unknown checksum type.
SHA1	Secure Hash Algorithm-1.
MD5	Message-Digest algorithm 5.
SIZE_OF_CHECKSUMTYPE

Constructor & Destructor Documentation

SourceFile() [1/3]

SourceFile

(

)

Constructor.

SourceFile() [2/3]

SourceFile ( const SourceFile &  )

default

Copy constructor.

SourceFile() [3/3]

SourceFile ( SourceFile &&  )

default

Move constructor.

~SourceFile()

~SourceFile ( )

override

Destructor.

Member Function Documentation

getChecksum()

const String& getChecksum

(

)

const

returns the file's checksum

getChecksumType()

ChecksumType getChecksumType

(

)

const

returns the checksum type

getFileSize()

float getFileSize

(

)

const

returns the file size in MB

getFileType()

const String& getFileType

(

)

const

returns the file type

getNameOfFile()

const String& getNameOfFile

(

)

const

returns the file name

getNativeIDType()

const String& getNativeIDType

(

)

const

Returns the native ID type of the spectra.

getNativeIDTypeAccession()

const String& getNativeIDTypeAccession

(

)

const

Returns the nativeID of the spectra.

getPathToFile()

const String& getPathToFile

(

)

const

returns the file path

operator!=()

bool operator!=

(

const SourceFile &

rhs

)

const

Equality operator.

operator=() [1/2]

SourceFile& operator= ( const SourceFile &  )

default

Assignment operator.

operator=() [2/2]

SourceFile& operator= ( SourceFile &&  )

default

Move assignment operator.

operator==()

bool operator==

(

const SourceFile &

rhs

)

const

Equality operator.

setChecksum()

void setChecksum	(	const String &	checksum,
		ChecksumType	type
	)

sets the file's checksum

setFileSize()

void setFileSize

(

float

file_size

)

sets the file size in MB

Referenced by XMassFile::load().

setFileType()

void setFileType

(

const String &

file_type

)

sets the file type

Referenced by XMassFile::load().

setNameOfFile()

void setNameOfFile

(

const String &

name_of_file

)

sets the file name

Referenced by XMassFile::load().

setNativeIDType()

void setNativeIDType

(

const String &

type

)

Sets the native ID type of the spectra.

setNativeIDTypeAccession()

void setNativeIDTypeAccession

(

const String &

accesssion

)

Sets the native ID of the spectra.

setPathToFile()

void setPathToFile

(

const String &

path_path_to_file

)

sets the file path

Referenced by XMassFile::load().

Member Data Documentation

checksum_

String checksum_

protected

checksum_type_

ChecksumType checksum_type_ = SourceFile::ChecksumType::UNKNOWN_CHECKSUM

protected

file_size_

double file_size_

protected

file_type_

String file_type_

protected

name_of_file_

String name_of_file_

protected

NamesOfChecksumType

const std::string NamesOfChecksumType[SIZE_OF_CHECKSUMTYPE]

static

Names of checksum types.

native_id_type_

String native_id_type_

protected

native_id_type_accession_

String native_id_type_accession_

protected

path_to_file_

String path_to_file_

protected