Serialized Form

Class taskspaces.rna.DatabaseEntry implements Serializable

Serialized Fields

name

java.lang.String name

Holds the name of the entry.

modules

java.lang.String[] modules

Holds the entry sequence modules.

structures

java.lang.String[] structures

Holds the entry sequence structures.

basePairs

java.lang.String[] basePairs

Holds the valid base pairs.

pairProbs

float[] pairProbs

Holds the probabilities for each base pair being selected based on the current composition.

composition

float[] composition

Holds the current percentage composition of bases.

gu

boolean gu

Indicates whether to allow GU or UG pairs.

constraints

java.util.ArrayList constraints

Holds integer arrays representing pairing rules for this entry.

Class taskspaces.rna.MersenneTwisterFast implements Serializable

Serialized Fields

mt

int[] mt

mti

int mti

mag01

int[] mag01

nextNextGaussian

double nextNextGaussian

haveNextNextGaussian

boolean haveNextNextGaussian

Class taskspaces.rna.Partition implements Serializable

Serialized Fields

objects

int objects

Holds number of objects.

modules

int modules

Holds number of modules.

partitions

int[] partitions

Holds partition values.

Class taskspaces.rna.SequenceGenerator implements Serializable

Class taskspaces.rna.Shuffler implements Serializable