org.molgenis.data.vcf

Class VcfRepository

java.lang.Object

org.molgenis.data.support.AbstractRepository

org.molgenis.data.vcf.VcfRepository

All Implemented Interfaces:

Closeable, AutoCloseable, Iterable<Entity>, Repository<Entity>

public class VcfRepository
extends AbstractRepository

Repository implementation for vcf files.

The filename without the extension is considered to be the entityname

Field Summary

Fields

Modifier and Type	Field and Description
static int	BATCH_SIZE
static String	DEFAULT_ATTRIBUTE_DESCRIPTION
static String	NAME
static String	ORIGINAL_NAME
static String	PREFIX

Method Summary

Modifier and Type	Method and Description
long	count()
void	forEachBatched(Consumer<List<Entity>> consumer, int batchSize)
Set<RepositoryCapability>	getCapabilities()
EntityType	getEntityType()
Iterator<Entity>	iterator()

Methods inherited from class org.molgenis.data.support.AbstractRepository

add, add, aggregate, close, count, delete, delete, deleteAll, deleteAll, deleteById, findAll, findAll, findAll, findOne, findOneById, findOneById, forEachBatched, getName, getQueryOperators, query, update, update

Methods inherited from class java.lang.Object

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

Methods inherited from interface org.molgenis.data.Repository

getExistingIDs, upsertBatch

Methods inherited from interface java.lang.Iterable

forEach, spliterator

Field Detail

DEFAULT_ATTRIBUTE_DESCRIPTION

public static final String DEFAULT_ATTRIBUTE_DESCRIPTION

See Also:

Constant Field Values

NAME

public static final String NAME

See Also:

Constant Field Values

ORIGINAL_NAME

public static final String ORIGINAL_NAME

See Also:

Constant Field Values

PREFIX

public static final String PREFIX

See Also:

Constant Field Values

BATCH_SIZE

public static final int BATCH_SIZE

See Also:

Constant Field Values

Method Detail

iterator

public Iterator<Entity> iterator()

getEntityType

public EntityType getEntityType()

getCapabilities

public Set<RepositoryCapability> getCapabilities()

count

public long count()

Specified by:

count in interface Repository<Entity>

Overrides:

count in class AbstractRepository

forEachBatched

public void forEachBatched(Consumer<List<Entity>> consumer,
                           int batchSize)