Package | Description |
---|---|
org.biopax.paxtools.pattern.constraint |
Package for constraints.
|
Modifier and Type | Class and Description |
---|---|
class |
ActivityConstraint
Checks if the PhysicalEntity controls anything.
|
class |
ActivityModificationChangeConstraint
This is a very specialized constraint that checks if two PhysicalEntity of the same
EntityReference have differential features, such that we can predict an activity change based on
gain or loss of these features.
|
class |
AND
Used for getting logical AND of a set of constraints.
|
class |
ConstraintChain
Used for using several constraints as a chain.
|
class |
ControlsNotParticipant
Checks if a controller of this Control is also a participant of the controlled interactions.
|
class |
ConversionSide
Given Conversion and its one of the participants (at the left or right), traverses to either
the participants at the other side or the same side.
|
class |
Empty
Checks if the parameter constraint cannot generate any candidate.
|
class |
Equality
Checks identity of two elements.
|
class |
Field
Checks if an element has or has not a specific value for a field, or the field value of another
element.
|
class |
FieldOfMultiple
Checks if generated elements has or has not a specific value for a field, or the field value of
another set of generated elements.
|
class |
HasAnID
Checks if the element has a valid ID.
|
class |
IDConstraint
Checks if the element has the desired ID.
|
class |
InterToPartER
This constraint is used to collect related EntityReference of the participant physical entities.
|
class |
LinkedPE
Many times we want to link PhysicalEntities (PE) while traversing a relation.
|
class |
ModificationChangeConstraint
This class checks if there exists a desired type of modification change among two PhysicalEntity.
|
class |
MultiPathConstraint
Logical OR of several PathConstraints.
|
class |
NonUbique
This is a non-generative constraint that checks if the small molecule is ubiquitous in any
context.
|
class |
NOT
Negation of a constraint.
|
class |
OR
Logical OR of several constraints.
|
class |
OtherSide
Deprecated.
|
class |
Participant
Gets input or output participants of a Conversion.
|
class |
ParticipatesInConv
Gets the related Conversion where the PhysicalEntity is input or output, whichever is desired.
|
class |
ParticipatingPE
Deprecated.
|
class |
PathConstraint
PathConstraint encapsulates PathAccessor of Paxtools.
|
class |
PEChainsIntersect
This constraint checks if two chains of linked physical entities are intersecting or not.
|
class |
RelatedControl
After traversing a PhysicalEntity and the Conversion it participates, this constraint takes us to
the Control.
|
class |
SelfOrThis
When a constraint excludes the origin element, but it is needed to be among them, use this
constraint.
|
class |
Size
Checks the size of the generated elements of the wrapped constraint.
|
class |
Type
Checks if a variable is a specific type or its subclass.
|
class |
XOR
Used for getting logical XOR of a set of constraints.
|
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