Package de.isas.lipidomics.domain

Class ModificationsList

java.lang.Object

de.isas.lipidomics.domain.ModificationsList

All Implemented Interfaces:

Iterable<org.apache.commons.lang3.tuple.Pair<Integer,String>>, Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>, List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

public class ModificationsList
extends Object
implements List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

Author:

nils.hoffmann

Field Summary

Fields

Modifier and Type	Field	Description
protected static ModificationsList	NONE

Constructor Summary

Constructors

Constructor	Description
ModificationsList()
ModificationsList(List<org.apache.commons.lang3.tuple.Pair<Integer,String>> list)

Method Summary

Modifier and Type	Method	Description
void	add(int index, org.apache.commons.lang3.tuple.Pair<Integer,String> element)
boolean	add(org.apache.commons.lang3.tuple.Pair<Integer,String> e)
boolean	addAll(int index, Collection<? extends org.apache.commons.lang3.tuple.Pair<Integer,String>> c)
boolean	addAll(Collection<? extends org.apache.commons.lang3.tuple.Pair<Integer,String>> c)
void	clear()
boolean	contains(Object o)
boolean	containsAll(Collection<?> c)
Integer	countFor(String modification)	Returns the total count (number of elements in this list) with that particular key.
Integer	countForHydroxy()	Returns the sum of the occurrence count for modifications with name "OH" in the provided modifications list.
void	forEach(Consumer<? super org.apache.commons.lang3.tuple.Pair<Integer,String>> action)
org.apache.commons.lang3.tuple.Pair<Integer,String>	get(int index)
int	indexOf(Object o)
boolean	isEmpty()
Iterator<org.apache.commons.lang3.tuple.Pair<Integer,String>>	iterator()
List<String>	keys()	Returns the modification names stored in this modifications list.
int	lastIndexOf(Object o)
ListIterator<org.apache.commons.lang3.tuple.Pair<Integer,String>>	listIterator()
ListIterator<org.apache.commons.lang3.tuple.Pair<Integer,String>>	listIterator(int index)
Stream<org.apache.commons.lang3.tuple.Pair<Integer,String>>	parallelStream()
org.apache.commons.lang3.tuple.Pair<Integer,String>	remove(int index)
boolean	remove(Object o)
boolean	removeAll(Collection<?> c)
boolean	removeIf(Predicate<? super org.apache.commons.lang3.tuple.Pair<Integer,String>> filter)
void	replaceAll(UnaryOperator<org.apache.commons.lang3.tuple.Pair<Integer,String>> operator)
boolean	retainAll(Collection<?> c)
org.apache.commons.lang3.tuple.Pair<Integer,String>	set(int index, org.apache.commons.lang3.tuple.Pair<Integer,String> element)
int	size()
void	sort(Comparator<? super org.apache.commons.lang3.tuple.Pair<Integer,String>> c)
Spliterator<org.apache.commons.lang3.tuple.Pair<Integer,String>>	spliterator()
Stream<org.apache.commons.lang3.tuple.Pair<Integer,String>>	stream()
List<org.apache.commons.lang3.tuple.Pair<Integer,String>>	subList(int fromIndex, int toIndex)
Object[]	toArray()
<T> T[]	toArray(IntFunction<T[]> generator)
<T> T[]	toArray(T[] a)
String	toString()

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Methods inherited from interface java.util.List

equals, hashCode

Field Detail

NONE

protected static final ModificationsList NONE

Constructor Detail

ModificationsList

public ModificationsList()

ModificationsList

public ModificationsList(List<org.apache.commons.lang3.tuple.Pair<Integer,String>> list)

Method Detail

size

public int size()

Specified by:

size in interface Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>

Specified by:

size in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

isEmpty

public boolean isEmpty()

Specified by:

isEmpty in interface Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>

Specified by:

isEmpty in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

contains

public boolean contains(Object o)

Specified by:

contains in interface Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>

Specified by:

contains in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

indexOf

public int indexOf(Object o)

Specified by:

indexOf in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

lastIndexOf

public int lastIndexOf(Object o)

Specified by:

lastIndexOf in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

toArray

public Object[] toArray()

Specified by:

toArray in interface Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>

Specified by:

toArray in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

toArray

public <T> T[] toArray(T[] a)

Specified by:

toArray in interface Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>

Specified by:

toArray in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

get

public org.apache.commons.lang3.tuple.Pair<Integer,String> get(int index)

Specified by:

get in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

set

public org.apache.commons.lang3.tuple.Pair<Integer,String> set(int index,
                                                                     org.apache.commons.lang3.tuple.Pair<Integer,String> element)

Specified by:

set in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

add

public boolean add(org.apache.commons.lang3.tuple.Pair<Integer,String> e)

Specified by:

add in interface Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>

Specified by:

add in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

add

public void add(int index,
                org.apache.commons.lang3.tuple.Pair<Integer,String> element)

Specified by:

add in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

remove

public org.apache.commons.lang3.tuple.Pair<Integer,String> remove(int index)

Specified by:

remove in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

remove

public boolean remove(Object o)

Specified by:

remove in interface Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>

Specified by:

remove in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

clear

public void clear()

Specified by:

clear in interface Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>

Specified by:

clear in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

addAll

public boolean addAll(Collection<? extends org.apache.commons.lang3.tuple.Pair<Integer,String>> c)

Specified by:

addAll in interface Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>

Specified by:

addAll in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

addAll

public boolean addAll(int index,
                      Collection<? extends org.apache.commons.lang3.tuple.Pair<Integer,String>> c)

Specified by:

addAll in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

removeAll

public boolean removeAll(Collection<?> c)

Specified by:

removeAll in interface Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>

Specified by:

removeAll in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

retainAll

public boolean retainAll(Collection<?> c)

Specified by:

retainAll in interface Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>

Specified by:

retainAll in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

listIterator

public ListIterator<org.apache.commons.lang3.tuple.Pair<Integer,String>> listIterator(int index)

Specified by:

listIterator in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

listIterator

public ListIterator<org.apache.commons.lang3.tuple.Pair<Integer,String>> listIterator()

Specified by:

listIterator in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

iterator

public Iterator<org.apache.commons.lang3.tuple.Pair<Integer,String>> iterator()

Specified by:

iterator in interface Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>

Specified by:

iterator in interface Iterable<org.apache.commons.lang3.tuple.Pair<Integer,String>>

Specified by:

iterator in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

subList

public List<org.apache.commons.lang3.tuple.Pair<Integer,String>> subList(int fromIndex,
                                                                               int toIndex)

Specified by:

subList in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

forEach

public void forEach(Consumer<? super org.apache.commons.lang3.tuple.Pair<Integer,String>> action)

Specified by:

forEach in interface Iterable<org.apache.commons.lang3.tuple.Pair<Integer,String>>

spliterator

public Spliterator<org.apache.commons.lang3.tuple.Pair<Integer,String>> spliterator()

Specified by:

spliterator in interface Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>

Specified by:

spliterator in interface Iterable<org.apache.commons.lang3.tuple.Pair<Integer,String>>

Specified by:

spliterator in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

removeIf

public boolean removeIf(Predicate<? super org.apache.commons.lang3.tuple.Pair<Integer,String>> filter)

Specified by:

removeIf in interface Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>

replaceAll

public void replaceAll(UnaryOperator<org.apache.commons.lang3.tuple.Pair<Integer,String>> operator)

Specified by:

replaceAll in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

sort

public void sort(Comparator<? super org.apache.commons.lang3.tuple.Pair<Integer,String>> c)

Specified by:

sort in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

containsAll

public boolean containsAll(Collection<?> c)

Specified by:

containsAll in interface Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>

Specified by:

containsAll in interface List<org.apache.commons.lang3.tuple.Pair<Integer,String>>

toString

public String toString()

Overrides:

toString in class Object

toArray

public <T> T[] toArray(IntFunction<T[]> generator)

Specified by:

toArray in interface Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>

stream

public Stream<org.apache.commons.lang3.tuple.Pair<Integer,String>> stream()

Specified by:

stream in interface Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>

parallelStream

public Stream<org.apache.commons.lang3.tuple.Pair<Integer,String>> parallelStream()

Specified by:

parallelStream in interface Collection<org.apache.commons.lang3.tuple.Pair<Integer,String>>

countFor

public Integer countFor(String modification)

Returns the total count (number of elements in this list) with that particular key.

Parameters:

modification - the modification to count, e.g. "OH".

Returns:

the number of times this modification occurs, or zero.

countForHydroxy

public Integer countForHydroxy()

Returns the sum of the occurrence count for modifications with name "OH" in the provided modifications list.

Returns:

the sum of the occurrences of OH.

keys

public List<String> keys()

Returns the modification names stored in this modifications list.

Returns:

the modification names.