run with CompNovoIonScoringBase More...
#include <OpenMS/ANALYSIS/DENOVO/CompNovoIonScoringBase.h>
Classes | |
| struct | IonScore |
Public Types | |
| enum | IsotopeType { PARENT = 0, CHILD = 1, LONE = 2 } |
Public Member Functions | |
| CompNovoIonScoringBase & | operator= (const CompNovoIonScoringBase &source) |
constructors and destructors | |
| CompNovoIonScoringBase () | |
| default constructor More... | |
| CompNovoIonScoringBase (const CompNovoIonScoringBase &source) | |
| copy constructor More... | |
| virtual | ~CompNovoIonScoringBase () |
| destructor More... | |
Accessors | |
| DoubleReal | scoreIsotopes (const PeakSpectrum &CID_spec, PeakSpectrum::ConstIterator it, Size charge) |
Public Member Functions inherited from DefaultParamHandler | |
| DefaultParamHandler (const String &name) | |
| Constructor with name that is displayed in error messages. More... | |
| DefaultParamHandler (const DefaultParamHandler &rhs) | |
| Copy constructor. More... | |
| virtual | ~DefaultParamHandler () |
| Destructor. More... | |
| virtual DefaultParamHandler & | operator= (const DefaultParamHandler &rhs) |
| Assignment operator. More... | |
| virtual bool | operator== (const DefaultParamHandler &rhs) const |
| Equality operator. More... | |
| void | setParameters (const Param ¶m) |
| Sets the parameters. More... | |
| const Param & | getParameters () const |
| Non-mutable access to the parameters. More... | |
| const Param & | getDefaults () const |
| Non-mutable access to the default parameters. More... | |
| const String & | getName () const |
| Non-mutable access to the name. More... | |
| void | setName (const String &name) |
| Mutable access to the name. More... | |
| const std::vector< String > & | getSubsections () const |
| Non-mutable access to the registered subsections. More... | |
Protected Member Functions | |
| void | updateMembers_ () |
| update members method from DefaultParamHandler to update the members More... | |
| IsotopeType | classifyIsotopes_ (const PeakSpectrum &spec, PeakSpectrum::ConstIterator it) |
| DoubleReal | scoreIsotopes_ (const PeakSpectrum &spec, PeakSpectrum::ConstIterator it, Map< DoubleReal, IonScore > &CID_nodes, Size charge=1) |
| virtual void | scoreWitnessSet_ (Size charge, DoubleReal precursor_weight, Map< DoubleReal, IonScore > &CID_nodes, const PeakSpectrum &CID_orig_spec)=0 |
| void | addSingleChargedIons_ (Map< DoubleReal, IonScore > &ion_scores, PeakSpectrum &CID_spec) |
| void | initIsotopeDistributions_ () |
Protected Member Functions inherited from DefaultParamHandler | |
| void | defaultsToParam_ () |
| Updates the parameters after the defaults have been set in the constructor. More... | |
Protected Attributes | |
| Map< Size, std::vector < DoubleReal > > | isotope_distributions_ |
| DoubleReal | fragment_mass_tolerance_ |
Protected Attributes inherited from DefaultParamHandler | |
| Param | param_ |
| Container for current parameters. More... | |
| Param | defaults_ |
| Container for default parameters. This member should be filled in the constructor of derived classes! More... | |
| std::vector< String > | subsections_ |
| Container for registered subsections. This member should be filled in the constructor of derived classes! More... | |
| String | error_name_ |
| Name that is displayed in error messages during the parameter checking. More... | |
| bool | check_defaults_ |
| If this member is set to false no checking if parameters in done;. More... | |
| bool | warn_empty_defaults_ |
| If this member is set to false no warning is emitted when defaults are empty;. More... | |
run with CompNovoIonScoringBase
| enum IsotopeType |
default constructor
| CompNovoIonScoringBase | ( | const CompNovoIonScoringBase & | source | ) |
copy constructor
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virtual |
destructor
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| CompNovoIonScoringBase& operator= | ( | const CompNovoIonScoringBase & | source | ) |
| DoubleReal scoreIsotopes | ( | const PeakSpectrum & | CID_spec, |
| PeakSpectrum::ConstIterator | it, | ||
| Size | charge | ||
| ) |
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protected |
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protectedpure virtual |
Implemented in CompNovoIonScoring, and CompNovoIonScoringCID.
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protectedvirtual |
update members method from DefaultParamHandler to update the members
Reimplemented from DefaultParamHandler.
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protected |
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protected |
| OpenMS / TOPP release 1.11.1 | Documentation generated on Thu Nov 14 2013 11:19:25 using doxygen 1.8.5 |