DataProcessing Class Reference

Description of the applied preprocessing steps. More...

#include <OpenMS/METADATA/DataProcessing.h>

Inheritance diagram for DataProcessing:

Collaboration diagram for DataProcessing:

Public Types
enum	ProcessingAction {   DATA_PROCESSING , CHARGE_DECONVOLUTION , DEISOTOPING , SMOOTHING ,   CHARGE_CALCULATION , PRECURSOR_RECALCULATION , BASELINE_REDUCTION , PEAK_PICKING ,   ALIGNMENT , CALIBRATION , NORMALIZATION , FILTERING ,   QUANTITATION , FEATURE_GROUPING , IDENTIFICATION_MAPPING , FORMAT_CONVERSION ,   CONVERSION_MZDATA , CONVERSION_MZML , CONVERSION_MZXML , CONVERSION_DTA ,   IDENTIFICATION , ION_MOBILITY_BINNING , SIZE_OF_PROCESSINGACTION }

Public Member Functions
	DataProcessing ()=default
	Constructor. More...
	DataProcessing (const DataProcessing &)=default
	Copy constructor. More...
	DataProcessing (DataProcessing &&) noexcept
	Move constructor. More...
	~DataProcessing ()
	Destructor. More...
DataProcessing &	operator= (const DataProcessing &)=default
	Assignment operator. More...
DataProcessing &	operator= (DataProcessing &&) &=default
	Move assignment operator. More...
bool	operator== (const DataProcessing &rhs) const
	Equality operator. More...
bool	operator!= (const DataProcessing &rhs) const
	Equality operator. More...
const Software &	getSoftware () const
	returns a const reference to the software used for processing More...
Software &	getSoftware ()
	returns a mutable reference to the software used for processing More...
void	setSoftware (const Software &software)
	sets the software used for processing More...
const std::set< ProcessingAction > &	getProcessingActions () const
	returns a const reference to the applied processing actions More...
std::set< ProcessingAction > &	getProcessingActions ()
	returns a mutable reference to the description of the applied processing More...
void	setProcessingActions (const std::set< ProcessingAction > &actions)
	sets the description of the applied processing More...
const DateTime &	getCompletionTime () const
	returns the time of completion of the processing More...
void	setCompletionTime (const DateTime &completion_time)
	sets the time of completion taking a DateTime object 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	NamesOfProcessingAction [SIZE_OF_PROCESSINGACTION]
	Names of inlet types. More...

Protected Attributes
Software	software_
std::set< ProcessingAction >	processing_actions_
DateTime	completion_time_
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 the applied preprocessing steps.

Member Enumeration Documentation

ProcessingAction

enum ProcessingAction

Enumerator
DATA_PROCESSING	General data processing (if no other term applies)
CHARGE_DECONVOLUTION	Charge deconvolution.
DEISOTOPING	Deisotoping.
SMOOTHING	Smoothing of the signal to reduce noise.
CHARGE_CALCULATION	Determination of the peak charge.
PRECURSOR_RECALCULATION	Recalculation of precursor m/z.
BASELINE_REDUCTION	Baseline reduction.
PEAK_PICKING	Peak picking (conversion from raw to peak data)
ALIGNMENT	Retention time alignment of different maps.
CALIBRATION	Calibration of m/z positions.
NORMALIZATION	Normalization of intensity values.
FILTERING	Data filtering or extraction.
QUANTITATION	Quantitation.
FEATURE_GROUPING	Feature grouping
IDENTIFICATION_MAPPING	Identification mapping
FORMAT_CONVERSION	General file format conversion (if no other term applies)
CONVERSION_MZDATA	Conversion to mzData format.
CONVERSION_MZML	Conversion to mzML format.
CONVERSION_MZXML	Conversion to mzXML format.
CONVERSION_DTA	Conversion to DTA format.
IDENTIFICATION	Identification.
ION_MOBILITY_BINNING	Ion mobility binning (merging of spectra with similar IM values)
SIZE_OF_PROCESSINGACTION

Constructor & Destructor Documentation

DataProcessing() [1/3]

DataProcessing ( )

default

Constructor.

DataProcessing() [2/3]

DataProcessing ( const DataProcessing &  )

default

Copy constructor.

DataProcessing() [3/3]

DataProcessing ( DataProcessing &&  )

noexcept

Move constructor.

~DataProcessing()

~DataProcessing

(

)

Destructor.

Member Function Documentation

getCompletionTime()

const DateTime& getCompletionTime

(

)

const

returns the time of completion of the processing

getProcessingActions() [1/2]

std::set<ProcessingAction>& getProcessingActions

(

)

returns a mutable reference to the description of the applied processing

getProcessingActions() [2/2]

const std::set<ProcessingAction>& getProcessingActions

(

)

const

returns a const reference to the applied processing actions

getSoftware() [1/2]

Software& getSoftware

(

)

returns a mutable reference to the software used for processing

getSoftware() [2/2]

const Software& getSoftware

(

)

const

returns a const reference to the software used for processing

operator!=()

bool operator!=

(

const DataProcessing &

rhs

)

const

Equality operator.

operator=() [1/2]

DataProcessing& operator= ( const DataProcessing &  )

default

Assignment operator.

operator=() [2/2]

DataProcessing& operator= ( DataProcessing &&  ) &

default

Move assignment operator.

operator==()

bool operator==

(

const DataProcessing &

rhs

)

const

Equality operator.

setCompletionTime()

void setCompletionTime

(

const DateTime &

completion_time

)

sets the time of completion taking a DateTime object

Referenced by XMassFile::load().

setProcessingActions()

void setProcessingActions

(

const std::set< ProcessingAction > &

actions

)

sets the description of the applied processing

Referenced by XMassFile::load().

setSoftware()

void setSoftware

(

const Software &

software

)

sets the software used for processing

Referenced by XMassFile::load().

Member Data Documentation

completion_time_

DateTime completion_time_

protected

NamesOfProcessingAction

const std::string NamesOfProcessingAction[SIZE_OF_PROCESSINGACTION]

static

Names of inlet types.

processing_actions_

std::set<ProcessingAction> processing_actions_

protected

software_

Software software_

protected