org.biopax.paxtools.model.level2

Interface process

All Superinterfaces:

BioPAXElement, Cloneable, entity, InteractionParticipant, Level2Element, pathwayComponent, Serializable, XReferrable

All Known Subinterfaces:

biochemicalReaction, catalysis, complexAssembly, control, conversion, interaction, modulation, pathway, physicalInteraction, transport, transportWithBiochemicalReaction

public interface process
extends entity, pathwayComponent

Tagging interface for entities that needs evidence and can be targeted by a control : Pathway and Interaction

Field Summary

Fields inherited from interface org.biopax.paxtools.model.BioPAXElement

UNKNOWN_DOUBLE, UNKNOWN_FLOAT, UNKNOWN_INT

Method Summary

Modifier and Type	Method and Description
void	addEVIDENCE(evidence EVIDENCE) This method adds the given evidence to this process.
Set<evidence>	getEVIDENCE() Gets all evidence objects.
Set<control>	isCONTROLLEDOf()
Set<pathway>	isPATHWAY_COMPONENTSof()
Set<pathwayStep>	isSTEP_INTERACTIONSOf()
void	removeEVIDENCE(evidence EVIDENCE) This method remmoves the given evidence from this process.
void	setEVIDENCE(Set<evidence> EVIDENCE)

Methods inherited from interface org.biopax.paxtools.model.level2.entity

addAVAILABILITY, addDATA_SOURCE, addSYNONYMS, getAVAILABILITY, getDATA_SOURCE, getNAME, getSHORT_NAME, getSYNONYMS, removeAVAILABILITY, removeDATA_SOURCE, removeSYNONYMS, setAVAILABILITY, setDATA_SOURCE, setNAME, setSHORT_NAME, setSYNONYMS

Methods inherited from interface org.biopax.paxtools.model.level2.XReferrable

addXREF, findCommonPublications, findCommonRelationships, findCommonUnifications, getXREF, removeXREF, setXREF

Methods inherited from interface org.biopax.paxtools.model.level2.InteractionParticipant

isPARTICIPANTSof

Methods inherited from interface org.biopax.paxtools.model.level2.Level2Element

addCOMMENT, getCOMMENT, removeCOMMENT, setCOMMENT

Methods inherited from interface org.biopax.paxtools.model.BioPAXElement

equivalenceCode, getAnnotations, getModelInterface, getUri, isEquivalent

Method Detail

addEVIDENCE

void addEVIDENCE(evidence EVIDENCE)

This method adds the given evidence to this process.

Parameters:

EVIDENCE - value to add

removeEVIDENCE

void removeEVIDENCE(evidence EVIDENCE)

This method remmoves the given evidence from this process. If process does not already contain this evidence this method does nothing

Parameters:

EVIDENCE - to remove

getEVIDENCE

Set<evidence> getEVIDENCE()

Gets all evidence objects.

Returns:

all the evidence objects attached directly to this process

setEVIDENCE

void setEVIDENCE(Set<evidence> EVIDENCE)

isCONTROLLEDOf

Set<control> isCONTROLLEDOf()

isPATHWAY_COMPONENTSof

Set<pathway> isPATHWAY_COMPONENTSof()

Specified by:

isPATHWAY_COMPONENTSof in interface pathwayComponent

isSTEP_INTERACTIONSOf

Set<pathwayStep> isSTEP_INTERACTIONSOf()