java.lang.Object
- org.molgenis.vibe.core.formats.BiologicalEntityCollection<T1,T2,T3>

Type Parameters:

T1 - the first BiologicalEntity subclass type

T2 - the second BiologicalEntity subclass type

T3 - the BiologicalEntityCombination combining BiologicalEntityCollection and BiologicalEntityCollection

All Implemented Interfaces:

Iterable<T3>, Collection<T3>, AllFieldsEquals

Direct Known Subclasses:

GeneDiseaseCollection
```
public abstract class BiologicalEntityCollection<T1 extends BiologicalEntity,T2 extends BiologicalEntity,T3 extends BiologicalEntityCombination<T1,T2>>
extends Object
implements Collection<T3>, AllFieldsEquals
```
A collection of 0 or more BiologicalEntityCombinations that have the same BiologicalEntityCollection and BiologicalEntityCollection class types.

Constructor Summary

Constructors
Modifier Constructor Description

protected BiologicalEntityCollection()

protected BiologicalEntityCollection(Collection<? extends T3> combinations)

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`boolean`	`add(T3 t3)`
`boolean`	`addAll(Collection<? extends T3> c)`
`boolean`	`allFieldsEquals(Object o)`
`void`	`clear()`
`boolean`	`contains(Object o)`
`boolean`	`containsAll(Collection<?> c)`
`boolean`	`equals(Object o)`
`T3`	`get(T3 t3)`
`Set<T3>`	`getByT1(T1 t1)`	Get all `BiologicalEntityCollection` belonging to a single `BiologicalEntityCollection`.
`Set<T3>`	`getByT2(T2 t2)`	Get all `BiologicalEntityCollection` belonging to a single `BiologicalEntityCollection`.
`Set<T1>`	`getT1()`
`Set<T2>`	`getT2()`
`Set<T3>`	`getT3()`
`List<T3>`	`getT3Ordered()`	Uses `getT3()` to create an ordered `List` first ordered based on `BiologicalEntityCollection` and then ordered based on `BiologicalEntityCollection`.
`int`	`hashCode()`
`boolean`	`isEmpty()`
`Iterator<T3>`	`iterator()`
`boolean`	`remove(Object o)`
`boolean`	`removeAll(Collection<?> c)`
`boolean`	`retainAll(Collection<?> c)`
`int`	`size()`
`Object[]`	`toArray()`
`<T> T[]`	`toArray(T[] a)`
`String`	`toString()`

Methods inherited from class java.lang.Object
clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Methods inherited from interface java.util.Collection
parallelStream, removeIf, spliterator, stream, toArray

Methods inherited from interface java.lang.Iterable
forEach

- Constructor Detail
  - BiologicalEntityCollection
```
protected BiologicalEntityCollection()
```
  - BiologicalEntityCollection
```
protected BiologicalEntityCollection(Collection<? extends T3> combinations)
```
- Method Detail
  - get
```
public T3 get(T3 t3)
```
  - getT1
```
public Set<T1> getT1()
```
  - getT2
```
public Set<T2> getT2()
```
  - getT3
```
public Set<T3> getT3()
```
  - getT3Ordered
```
public List<T3> getT3Ordered()
```
    Uses getT3() to create an ordered List first ordered based on BiologicalEntityCollection and then ordered based on BiologicalEntityCollection.
    
    Returns:
    
    ordered List of BiologicalEntityCollection
  - getByT1
```
public Set<T3> getByT1(T1 t1)
```
    Get all BiologicalEntityCollection belonging to a single BiologicalEntityCollection.
    
    Parameters:
    
    t1 -
    
    Returns:
    
    all BiologicalEntityCollection belonging to t1
  - getByT2
```
public Set<T3> getByT2(T2 t2)
```
    Get all BiologicalEntityCollection belonging to a single BiologicalEntityCollection.
    
    Parameters:
    
    t2 -
    
    Returns:
    
    all BiologicalEntityCollection belonging to t2
  - size
```
public int size()
```
    Specified by:
    
    size in interface Collection<T1 extends BiologicalEntity>
  - isEmpty
```
public boolean isEmpty()
```
    Specified by:
    
    isEmpty in interface Collection<T1 extends BiologicalEntity>
  - contains
```
public boolean contains(Object o)
```
    Specified by:
    
    contains in interface Collection<T1 extends BiologicalEntity>
  - iterator
```
public Iterator<T3> iterator()
```
    Specified by:
    
    iterator in interface Collection<T1 extends BiologicalEntity>
    
    Specified by:
    
    iterator in interface Iterable<T1 extends BiologicalEntity>
  - toArray
```
public Object[] toArray()
```
    Specified by:
    
    toArray in interface Collection<T1 extends BiologicalEntity>
  - toArray
```
public <T> T[] toArray(T[] a)
```
    Specified by:
    
    toArray in interface Collection<T1 extends BiologicalEntity>
  - add
```
public boolean add(T3 t3)
```
    Specified by:
    
    add in interface Collection<T1 extends BiologicalEntity>
  - remove
```
public boolean remove(Object o)
```
    Specified by:
    
    remove in interface Collection<T1 extends BiologicalEntity>
  - containsAll
```
public boolean containsAll(Collection<?> c)
```
    Specified by:
    
    containsAll in interface Collection<T1 extends BiologicalEntity>
  - addAll
```
public boolean addAll(Collection<? extends T3> c)
```
    Specified by:
    
    addAll in interface Collection<T1 extends BiologicalEntity>
  - removeAll
```
public boolean removeAll(Collection<?> c)
```
    Specified by:
    
    removeAll in interface Collection<T1 extends BiologicalEntity>
  - retainAll
```
public boolean retainAll(Collection<?> c)
```
    Specified by:
    
    retainAll in interface Collection<T1 extends BiologicalEntity>
  - clear
```
public void clear()
```
    Specified by:
    
    clear in interface Collection<T1 extends BiologicalEntity>
  - toString
```
public String toString()
```
    Overrides:
    
    toString in class Object
  - equals
```
public boolean equals(Object o)
```
    Specified by:
    
    equals in interface Collection<T1 extends BiologicalEntity>
    
    Overrides:
    
    equals in class Object
  - allFieldsEquals
```
public boolean allFieldsEquals(Object o)
```
    Specified by:
    
    allFieldsEquals in interface AllFieldsEquals
  - hashCode
```
public int hashCode()
```
    Specified by:
    
    hashCode in interface Collection<T1 extends BiologicalEntity>
    
    Overrides:
    
    hashCode in class Object

Modifier	Constructor	Description
`protected`	`BiologicalEntityCollection()`
`protected`	`BiologicalEntityCollection(Collection<? extends T3> combinations)`

Class BiologicalEntityCollection<T1 extends BiologicalEntity,​T2 extends BiologicalEntity,​T3 extends BiologicalEntityCombination<T1,​T2>>

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Methods inherited from interface java.util.Collection

Methods inherited from interface java.lang.Iterable

Constructor Detail

BiologicalEntityCollection

BiologicalEntityCollection

Method Detail

get

getT1

getT2

getT3

getT3Ordered

getByT1

getByT2

size

isEmpty

contains

iterator

toArray

toArray

add

remove

containsAll

addAll

removeAll

retainAll

clear

toString

equals

allFieldsEquals

hashCode

Class BiologicalEntityCollection<T1 extends BiologicalEntity,T2 extends BiologicalEntity,T3 extends BiologicalEntityCombination<T1,T2>>