Package | Description |
---|---|
org.sbml.jsbml |
Pure Java™ implementation of the data structures to represent all SBML
constructs.
|
org.sbml.jsbml.ext.multi |
Provides classes for the Multi package.
|
Modifier and Type | Method | Description |
---|---|---|
SpeciesReference |
SpeciesReference.clone() |
|
SpeciesReference |
Model.createProduct() |
Creates a new
SpeciesReference object for a product inside the last
Reaction object in this Model , and returns a pointer to it. |
SpeciesReference |
Model.createProduct(java.lang.String id) |
Creates an instance of
SpeciesReference and adds it to the last
Reaction element that has been added to this Model . |
SpeciesReference |
Reaction.createProduct() |
|
SpeciesReference |
Reaction.createProduct(java.lang.String id) |
|
SpeciesReference |
Reaction.createProduct(java.lang.String id,
java.lang.String species) |
|
SpeciesReference |
Reaction.createProduct(java.lang.String id,
Species species) |
Creates a new
SpeciesReference with the given id as
its identifier, which points to the given Species , adds it to
this Reaction 's Reaction.listOfProducts and returns a pointer to
it. |
SpeciesReference |
Reaction.createProduct(Species species) |
Creates a new
SpeciesReference , which points to the given
Species , adds it to this Reaction 's
Reaction.listOfProducts and returns a pointer to it. |
SpeciesReference |
Model.createReactant() |
Creates a new
SpeciesReference object for a reactant inside the
last Reaction object in this Model , and returns a pointer
to it. |
SpeciesReference |
Model.createReactant(java.lang.String id) |
Creates a new
SpeciesReference object, with the specified 'id', for
a reactant inside the last Reaction object in this Model ,
and returns a pointer to it. |
SpeciesReference |
Reaction.createReactant() |
|
SpeciesReference |
Reaction.createReactant(java.lang.String id) |
Creates a new
SpeciesReference with the given identifier and adds
it to this Reaction 's Reaction.listOfReactants . |
SpeciesReference |
Reaction.createReactant(java.lang.String id,
java.lang.String species) |
|
SpeciesReference |
Reaction.createReactant(java.lang.String id,
Species species) |
Creates a new
SpeciesReference with the given id as
identifier, which points to the given Species and adds it to the
Reaction.listOfReactants . |
SpeciesReference |
Reaction.createReactant(Species species) |
|
SpeciesReference |
Model.findSpeciesReference(java.lang.String id) |
|
SpeciesReference |
StoichiometryMath.getParent() |
Deprecated.
|
SpeciesReference |
Reaction.getProduct(int i) |
|
SpeciesReference |
Reaction.getProduct(java.lang.String id) |
Searches the first
SpeciesReference in the listOfProducts of this
Reaction with the given identifier. |
SpeciesReference |
Reaction.getProductForSpecies(java.lang.String id) |
Returns the first
SpeciesReference in the Reaction.listOfProducts
of this Reaction whose 'species' attribute points to a
Species with the given identifier. |
SpeciesReference |
Reaction.getReactant(int i) |
|
SpeciesReference |
Reaction.getReactant(java.lang.String id) |
Searches the first
SpeciesReference in the listOfReactants of
this Reaction with the given identifier. |
SpeciesReference |
Reaction.getReactantForSpecies(java.lang.String id) |
Returns the first
SpeciesReference in the
Reaction.listOfReactants of this Reaction whose 'species'
attribute points to a Species with the given identifier. |
SpeciesReference |
Reaction.removeProduct(int i) |
Removes the nth product species (SpeciesReference object) in the list of
products in this Reaction and returns it.
|
SpeciesReference |
Reaction.removeProduct(java.lang.String id) |
Removes the product species (SpeciesReference object) having the given
'species' attribute in the list of products in this Reaction and returns
it.
|
SpeciesReference |
Reaction.removeReactant(int i) |
Removes the nth reactant species (SpeciesReference object) in the list of
reactants in this Reaction and returns it.
|
SpeciesReference |
Reaction.removeReactant(java.lang.String id) |
Removes the reactant species (SpeciesReference object) having the given
'species' attribute in the list of reactants in this Reaction and returns
it.
|
Modifier and Type | Method | Description |
---|---|---|
ListOf<SpeciesReference> |
Reaction.getListOfProducts() |
|
ListOf<SpeciesReference> |
Reaction.getListOfReactants() |
Modifier and Type | Method | Description |
---|---|---|
boolean |
Reaction.addProduct(SpeciesReference specref) |
Adds a
SpeciesReference instance to the listOfProducts of this Reaction . |
boolean |
Reaction.addReactant(SpeciesReference specref) |
Adds a
SpeciesReference instance to the listOfReactants of this Reaction . |
void |
Reaction.removeProduct(SpeciesReference specref) |
Removes the SpeciesReference 'modspecref' from the listOfProducts of this
Reaction.
|
boolean |
Reaction.removeReactant(SpeciesReference specref) |
Removes the SpeciesReference 'modspecref' from the listOfReactants of
this Reaction.
|
Modifier and Type | Method | Description |
---|---|---|
void |
Reaction.setListOfProducts(ListOf<SpeciesReference> listOfProducts) |
Sets the
Reaction.listOfProducts of this Reaction . |
void |
Reaction.setListOfReactants(ListOf<SpeciesReference> listOfReactants) |
Sets the listOfReactants of this
Reaction . |
Constructor | Description |
---|---|
SpeciesReference(SpeciesReference speciesReference) |
Creates a SpeciesReference instance from a given SpeciesReference.
|
Constructor | Description |
---|---|
MultiSpeciesReferencePlugin(SpeciesReference sp) |
Creates a MultiSpeciesReferencePlugin instance with a
SpeciesReference . |