ReactionMonitoringTransition#

class pyopenms.ReactionMonitoringTransition#

Bases: object

Cython implementation of _ReactionMonitoringTransition

Documentation is available at http://www.openms.de/current_doxygen/html/classOpenMS_1_1ReactionMonitoringTransition.html: – Inherits from [‘CVTermList’]

__init__()#

Cython signature: void ReactionMonitoringTransition()
Cython signature: void ReactionMonitoringTransition(ReactionMonitoringTransition &)

Methods

`__init__`	Cython signature: void ReactionMonitoringTransition()
`addCVTerm`	Cython signature: void addCVTerm(CVTerm & term) Adds a CV term
`addIntermediateProduct`	Cython signature: void addIntermediateProduct(TraMLProduct product)
`addPrecursorCVTerm`	Cython signature: void addPrecursorCVTerm(CVTerm & cv_term) Adds precursor CV Term
`addPredictionTerm`	Cython signature: void addPredictionTerm(CVTerm & prediction) Adds prediction term
`addProductCVTerm`	Cython signature: void addProductCVTerm(CVTerm & cv_term)
`clearMetaInfo`	Cython signature: void clearMetaInfo() Removes all meta values
`consumeCVTerms`	Cython signature: void consumeCVTerms(libcpp_map[String,libcpp_vector[CVTerm]] cv_term_map) Merges the given map into the member map, no duplicate checking
`empty`	Cython signature: bool empty()
`getCVTerms`	Cython signature: libcpp_map[String,libcpp_vector[CVTerm]] getCVTerms() Returns the accession string of the term
`getCompoundRef`	Cython signature: String getCompoundRef()
`getDecoyTransitionType`	Cython signature: DecoyTransitionType getDecoyTransitionType() Returns the type of transition (target or decoy)
`getIntermediateProducts`	Cython signature: libcpp_vector[TraMLProduct] getIntermediateProducts()
`getKeys`	Cython signature: void getKeys(libcpp_vector[String] & keys) Fills the given vector with a list of all keys for which a value is set
`getLibraryIntensity`	Cython signature: double getLibraryIntensity() Returns the library intensity (ion count or normalized ion count from a spectral library)
`getMetaValue`	Cython signature: DataValue getMetaValue(String) Returns the value corresponding to a string, or
`getName`	Cython signature: String getName()
`getNativeID`	Cython signature: String getNativeID()
`getPeptideRef`	Cython signature: String getPeptideRef()
`getPrecursorCVTermList`	Cython signature: CVTermList getPrecursorCVTermList() Obtains the list of CV Terms for the precursor
`getPrecursorMZ`	Cython signature: double getPrecursorMZ() Returns the precursor mz (Q1 value)
`getPrediction`	Cython signature: Prediction getPrediction() Obtains the Prediction object
`getProduct`	Cython signature: TraMLProduct getProduct()
`getProductChargeState`	Cython signature: int getProductChargeState() Returns the charge state of the product
`getProductMZ`	Cython signature: double getProductMZ()
`getRetentionTime`	Cython signature: RetentionTime getRetentionTime()
`hasCVTerm`	Cython signature: bool hasCVTerm(String accession)
`hasPrecursorCVTerms`	Cython signature: bool hasPrecursorCVTerms() Returns true if precursor CV Terms exist (means it is safe to call getPrecursorCVTermList)
`hasPrediction`	Cython signature: bool hasPrediction() Returns true if a Prediction object exists (means it is safe to call getPrediction)
`isDetectingTransition`	Cython signature: bool isDetectingTransition()
`isIdentifyingTransition`	Cython signature: bool isIdentifyingTransition()
`isMetaEmpty`	Cython signature: bool isMetaEmpty() Returns if the MetaInfo is empty
`isProductChargeStateSet`	Cython signature: bool isProductChargeStateSet() Returns true if charge state of product is already set
`isQuantifyingTransition`	Cython signature: bool isQuantifyingTransition()
`metaRegistry`	Cython signature: MetaInfoRegistry metaRegistry() Returns a reference to the MetaInfoRegistry
`metaValueExists`	Cython signature: bool metaValueExists(String) Returns whether an entry with the given name exists
`removeMetaValue`	Cython signature: void removeMetaValue(String) Removes the DataValue corresponding to name if it exists
`replaceCVTerm`	Cython signature: void replaceCVTerm(CVTerm & term) Replaces the specified CV term
`replaceCVTerms`	Cython signature: void replaceCVTerms(libcpp_vector[CVTerm] cv_terms, String accession)
`setCVTerms`	Cython signature: void setCVTerms(libcpp_vector[CVTerm] & terms) Sets the CV terms
`setCompoundRef`	Cython signature: void setCompoundRef(const String & compound_ref)
`setDecoyTransitionType`	Cython signature: void setDecoyTransitionType(DecoyTransitionType & d) Sets the type of transition (target or decoy)
`setDetectingTransition`	Cython signature: void setDetectingTransition(bool val)
`setIdentifyingTransition`	Cython signature: void setIdentifyingTransition(bool val)
`setIntermediateProducts`	Cython signature: void setIntermediateProducts(libcpp_vector[TraMLProduct] & products)
`setLibraryIntensity`	Cython signature: void setLibraryIntensity(double intensity) Sets the library intensity (ion count or normalized ion count from a spectral library)
`setMetaValue`	Cython signature: void setMetaValue(String, DataValue) Sets the DataValue corresponding to a name
`setName`	Cython signature: void setName(String name)
`setNativeID`	Cython signature: void setNativeID(String name)
`setPeptideRef`	Cython signature: void setPeptideRef(String peptide_ref)
`setPrecursorCVTermList`	Cython signature: void setPrecursorCVTermList(CVTermList & list_) Sets a list of precursor CV Terms
`setPrecursorMZ`	Cython signature: void setPrecursorMZ(double) Sets the precursor mz (Q1 value)
`setPrediction`	Cython signature: void setPrediction(Prediction & prediction) Sets prediction
`setProduct`	Cython signature: void setProduct(TraMLProduct product)
`setProductMZ`	Cython signature: void setProductMZ(double)
`setQuantifyingTransition`	Cython signature: void setQuantifyingTransition(bool val)
`setRetentionTime`	Cython signature: void setRetentionTime(RetentionTime rt)

addCVTerm()#: Cython signature: void addCVTerm(CVTerm & term) Adds a CV term

addIntermediateProduct()#: Cython signature: void addIntermediateProduct(TraMLProduct product)

addPrecursorCVTerm()#: Cython signature: void addPrecursorCVTerm(CVTerm & cv_term) Adds precursor CV Term

addPredictionTerm()#: Cython signature: void addPredictionTerm(CVTerm & prediction) Adds prediction term

addProductCVTerm()#: Cython signature: void addProductCVTerm(CVTerm & cv_term)

clearMetaInfo()#: Cython signature: void clearMetaInfo() Removes all meta values

consumeCVTerms()#: Cython signature: void consumeCVTerms(libcpp_map[String,libcpp_vector[CVTerm]] cv_term_map) Merges the given map into the member map, no duplicate checking

empty()#: Cython signature: bool empty()

getCVTerms()#: Cython signature: libcpp_map[String,libcpp_vector[CVTerm]] getCVTerms() Returns the accession string of the term

getCompoundRef()#: Cython signature: String getCompoundRef()

getDecoyTransitionType()#: Cython signature: DecoyTransitionType getDecoyTransitionType() Returns the type of transition (target or decoy)

getIntermediateProducts()#: Cython signature: libcpp_vector[TraMLProduct] getIntermediateProducts()

getKeys()#: Cython signature: void getKeys(libcpp_vector[String] & keys) Fills the given vector with a list of all keys for which a value is set

getLibraryIntensity()#: Cython signature: double getLibraryIntensity() Returns the library intensity (ion count or normalized ion count from a spectral library)

getMetaValue()#: Cython signature: DataValue getMetaValue(String) Returns the value corresponding to a string, or

getName()#: Cython signature: String getName()

getNativeID()#: Cython signature: String getNativeID()

getPeptideRef()#: Cython signature: String getPeptideRef()

getPrecursorCVTermList()#: Cython signature: CVTermList getPrecursorCVTermList() Obtains the list of CV Terms for the precursor

getPrecursorMZ()#: Cython signature: double getPrecursorMZ() Returns the precursor mz (Q1 value)

getPrediction()#: Cython signature: Prediction getPrediction() Obtains the Prediction object

getProduct()#: Cython signature: TraMLProduct getProduct()

getProductChargeState()#: Cython signature: int getProductChargeState() Returns the charge state of the product

getProductMZ()#: Cython signature: double getProductMZ()

getRetentionTime()#: Cython signature: RetentionTime getRetentionTime()

hasCVTerm()#: Cython signature: bool hasCVTerm(String accession)

hasPrecursorCVTerms()#: Cython signature: bool hasPrecursorCVTerms() Returns true if precursor CV Terms exist (means it is safe to call getPrecursorCVTermList)

hasPrediction()#: Cython signature: bool hasPrediction() Returns true if a Prediction object exists (means it is safe to call getPrediction)

isDetectingTransition()#: Cython signature: bool isDetectingTransition()

isIdentifyingTransition()#: Cython signature: bool isIdentifyingTransition()

isMetaEmpty()#: Cython signature: bool isMetaEmpty() Returns if the MetaInfo is empty

isProductChargeStateSet()#: Cython signature: bool isProductChargeStateSet() Returns true if charge state of product is already set

isQuantifyingTransition()#: Cython signature: bool isQuantifyingTransition()

metaRegistry()#: Cython signature: MetaInfoRegistry metaRegistry() Returns a reference to the MetaInfoRegistry

metaValueExists()#: Cython signature: bool metaValueExists(String) Returns whether an entry with the given name exists

removeMetaValue()#: Cython signature: void removeMetaValue(String) Removes the DataValue corresponding to name if it exists

replaceCVTerm()#: Cython signature: void replaceCVTerm(CVTerm & term) Replaces the specified CV term

replaceCVTerms()#: Cython signature: void replaceCVTerms(libcpp_vector[CVTerm] cv_terms, String accession)

setCVTerms()#: Cython signature: void setCVTerms(libcpp_vector[CVTerm] & terms) Sets the CV terms

setCompoundRef()#: Cython signature: void setCompoundRef(const String & compound_ref)

setDecoyTransitionType()#: Cython signature: void setDecoyTransitionType(DecoyTransitionType & d) Sets the type of transition (target or decoy)

setDetectingTransition()#: Cython signature: void setDetectingTransition(bool val)

setIdentifyingTransition()#: Cython signature: void setIdentifyingTransition(bool val)

setIntermediateProducts()#: Cython signature: void setIntermediateProducts(libcpp_vector[TraMLProduct] & products)

setLibraryIntensity()#: Cython signature: void setLibraryIntensity(double intensity) Sets the library intensity (ion count or normalized ion count from a spectral library)

setMetaValue()#: Cython signature: void setMetaValue(String, DataValue) Sets the DataValue corresponding to a name

setName()#: Cython signature: void setName(String name)

setNativeID()#: Cython signature: void setNativeID(String name)

setPeptideRef()#: Cython signature: void setPeptideRef(String peptide_ref)

setPrecursorCVTermList()#: Cython signature: void setPrecursorCVTermList(CVTermList & list_) Sets a list of precursor CV Terms

setPrecursorMZ()#: Cython signature: void setPrecursorMZ(double) Sets the precursor mz (Q1 value)

setPrediction()#: Cython signature: void setPrediction(Prediction & prediction) Sets prediction

setProduct()#: Cython signature: void setProduct(TraMLProduct product)

setProductMZ()#: Cython signature: void setProductMZ(double)

setQuantifyingTransition()#: Cython signature: void setQuantifyingTransition(bool val)

setRetentionTime()#: Cython signature: void setRetentionTime(RetentionTime rt)