Constructor Detail

Method Detail

• addReaction

   abstract void addReaction(Reaction<T> r)

  Adds a reaction to this node. The reaction is added only in the node, but not in the Simulation scheduler, so it will never be executed. To add the reaction also in the scheduler (and start to execute it), you have to call also the method reactionAdded.

  Parameters:

  r - the reaction to be added

• cloneNode

   abstract Node<T> cloneNode(Time currentTime)

  Creates a new Node which is a clone of the current Node. The new Node will have all the current Node's properties, such as reactions and molecules, but it will also have a different ID.

  Parameters:

  currentTime - the time at which the cloning operation happens

• contains

   abstract boolean contains(Molecule mol)

  Tests whether a node contains a Molecule.

  Parameters:

  mol - the molecule to check

• getConcentration

   abstract T getConcentration(Molecule mol)

  Calculates the concentration of a molecule.

  Parameters:

  mol - the molecule whose concentration will be returned

• getContents

   abstract Map<Molecule, T> getContents()

• getId

   abstract int getId()

• getMoleculeCount

   abstract int getMoleculeCount()

• getReactions

   abstract List<Reaction<T>> getReactions()

  This method allows to access all the reaction of the node.

• hashCode

   abstract int hashCode()

• removeConcentration

   abstract void removeConcentration(Molecule mol)

  Parameters:

  mol - the molecule that should be removed

• removeReaction

   abstract void removeReaction(Reaction<T> r)

  Removes a reaction from this node. The reaction is removed only in the node, but not in the Simulation scheduler, so the scheduler will continue to execute the reaction. To remove the reaction also in the scheduler (and stop to execute it), you have to call also the method reactionRemoved.

  Parameters:

  r - the reaction to be removed

• setConcentration

   abstract void setConcentration(Molecule mol, T c)

  Sets the concentration of mol to c.

  Parameters:

  mol - the molecule you want to set the concentration

  c - the concentration you want for mol