| OpenMS 2.5.0

MapAlignmentAlgorithmSpectrumAlignment Member List

This is the complete list of members for MapAlignmentAlgorithmSpectrumAlignment, including all inherited members.

affineGapalign_(Size xbegin, Size ybegin, Size xend, Size yend, const std::vector< MSSpectrum *> &pattern, std::vector< MSSpectrum *> &aligned, std::vector< int > &xcoordinate, std::vector< float > &ycoordinate, std::vector< int > &xcoordinatepattern) | MapAlignmentAlgorithmSpectrumAlignment | private
align(std::vector< PeakMap > &, std::vector< TransformationDescription > &) | MapAlignmentAlgorithmSpectrumAlignment | virtual
anchorPoints_ | MapAlignmentAlgorithmSpectrumAlignment | private
bestk_(const std::vector< MSSpectrum *> &pattern, std::vector< MSSpectrum *> &aligned, std::map< Size, std::map< Size, float > > &buffer, bool column_row_orientation, Size xbegin, Size xend, Size ybegin, Size yend) | MapAlignmentAlgorithmSpectrumAlignment | private
bucketFilter_(const std::vector< MSSpectrum *> &pattern, std::vector< MSSpectrum *> &aligned, std::vector< Int > &xcoordinate, std::vector< float > &ycoordinate, std::vector< Int > &xcoordinatepattern) | MapAlignmentAlgorithmSpectrumAlignment | private
bucketsize_ | MapAlignmentAlgorithmSpectrumAlignment | private
c1_ | MapAlignmentAlgorithmSpectrumAlignment | private
check_defaults_ | DefaultParamHandler | protected
CMD enum value | ProgressLogger |
current_logger_ | ProgressLogger | mutable protected
cutoffScore_ | MapAlignmentAlgorithmSpectrumAlignment | private
debug_ | MapAlignmentAlgorithmSpectrumAlignment | private
debugFileCreator_(const std::vector< MSSpectrum *> &pattern, std::vector< MSSpectrum *> &aligned) | MapAlignmentAlgorithmSpectrumAlignment | private
debugmatrix_ | MapAlignmentAlgorithmSpectrumAlignment | private
debugscoreDistributionCalculation_(float score) | MapAlignmentAlgorithmSpectrumAlignment | private
debugscorematrix_ | MapAlignmentAlgorithmSpectrumAlignment | private
debugtraceback_ | MapAlignmentAlgorithmSpectrumAlignment | private
DefaultParamHandler(const String &name) | DefaultParamHandler |
DefaultParamHandler(const DefaultParamHandler &rhs) | DefaultParamHandler |
defaults_ | DefaultParamHandler | protected
defaultsToParam_() | DefaultParamHandler | protected
e_ | MapAlignmentAlgorithmSpectrumAlignment | private
endProgress() const | ProgressLogger |
error_name_ | DefaultParamHandler | protected
gap_ | MapAlignmentAlgorithmSpectrumAlignment | private
getDefaults() const | DefaultParamHandler |
getLogType() const | ProgressLogger |
getName() const | DefaultParamHandler |
getParameters() const | DefaultParamHandler |
getSubsections() const | DefaultParamHandler |
GUI enum value | ProgressLogger |
insideBand_(Size i, Size j, Size n, Size m, Int k_) | MapAlignmentAlgorithmSpectrumAlignment | private
last_invoke_ | ProgressLogger | mutable protected
LogType enum name | ProgressLogger |
logTypeToFactoryName_(LogType type) | ProgressLogger | protected static
MapAlignmentAlgorithmSpectrumAlignment() | MapAlignmentAlgorithmSpectrumAlignment |
MapAlignmentAlgorithmSpectrumAlignment(const MapAlignmentAlgorithmSpectrumAlignment &) | MapAlignmentAlgorithmSpectrumAlignment | private
mismatchscore_ | MapAlignmentAlgorithmSpectrumAlignment | private
msFilter_(PeakMap &peakmap, std::vector< MSSpectrum *> &spectrum_pointer_container) | MapAlignmentAlgorithmSpectrumAlignment | private
nextProgress() const | ProgressLogger |
NONE enum value | ProgressLogger |
operator=(const MapAlignmentAlgorithmSpectrumAlignment &) | MapAlignmentAlgorithmSpectrumAlignment | private
OpenMS::DefaultParamHandler::operator=(const DefaultParamHandler &rhs) | DefaultParamHandler | virtual
OpenMS::ProgressLogger::operator=(const ProgressLogger &other) | ProgressLogger |
operator==(const DefaultParamHandler &rhs) const | DefaultParamHandler | virtual
param_ | DefaultParamHandler | protected
prepareAlign_(const std::vector< MSSpectrum *> &pattern, PeakMap &aligned, std::vector< TransformationDescription > &transformation) | MapAlignmentAlgorithmSpectrumAlignment | private
ProgressLogger() | ProgressLogger |
ProgressLogger(const ProgressLogger &other) | ProgressLogger |
recursion_depth_ | ProgressLogger | protected static
scoreCalculation_(Size i, Size j, Size patternbegin, Size alignbegin, const std::vector< MSSpectrum *> &pattern, std::vector< MSSpectrum *> &aligned, std::map< Size, std::map< Size, float > > &buffer, bool column_row_orientation) | MapAlignmentAlgorithmSpectrumAlignment | private
scoredistribution_ | MapAlignmentAlgorithmSpectrumAlignment | private
scoring_(const MSSpectrum &a, MSSpectrum &b) | MapAlignmentAlgorithmSpectrumAlignment | private
setLogType(LogType type) const | ProgressLogger |
setName(const String &name) | DefaultParamHandler |
setParameters(const Param &param) | DefaultParamHandler |
setProgress(SignedSize value) const | ProgressLogger |
startProgress(SignedSize begin, SignedSize end, const String &label) const | ProgressLogger |
subsections_ | DefaultParamHandler | protected
threshold_ | MapAlignmentAlgorithmSpectrumAlignment | private
type_ | ProgressLogger | mutable protected
updateMembers_() override | MapAlignmentAlgorithmSpectrumAlignment | private virtual
warn_empty_defaults_ | DefaultParamHandler | protected
~DefaultParamHandler() | DefaultParamHandler | virtual
~MapAlignmentAlgorithmSpectrumAlignment() override | MapAlignmentAlgorithmSpectrumAlignment |
~ProgressLogger() | ProgressLogger |