Package org.molgenis.data.vcf

Class VcfRepository

java.lang.Object

org.molgenis.data.support.AbstractRepository

org.molgenis.data.vcf.VcfRepository

All Implemented Interfaces:

java.io.Closeable, java.lang.AutoCloseable, java.lang.Iterable<org.molgenis.data.Entity>, org.molgenis.data.Repository<org.molgenis.data.Entity>

public class VcfRepository
extends org.molgenis.data.support.AbstractRepository

Repository implementation for vcf files.

The filename without the extension is considered to be the entityname

Field Summary

Fields

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

Method Summary

Modifier and Type	Method	Description
long	count()
void	forEachBatched(java.util.function.Consumer<java.util.List<org.molgenis.data.Entity>> consumer, int batchSize)
java.util.Set<org.molgenis.data.RepositoryCapability>	getCapabilities()
org.molgenis.data.meta.model.EntityType	getEntityType()
java.util.Iterator<org.molgenis.data.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 java.lang.Iterable

forEach, spliterator

Methods inherited from interface org.molgenis.data.Repository

getExistingIDs, upsertBatch

Field Detail

DEFAULT_ATTRIBUTE_DESCRIPTION

public static final java.lang.String DEFAULT_ATTRIBUTE_DESCRIPTION

See Also:

Constant Field Values

NAME

public static final java.lang.String NAME

See Also:

Constant Field Values

ORIGINAL_NAME

public static final java.lang.String ORIGINAL_NAME

See Also:

Constant Field Values

PREFIX

public static final java.lang.String PREFIX

See Also:

Constant Field Values

BATCH_SIZE

public static final int BATCH_SIZE

See Also:

Constant Field Values

Method Detail

iterator

public java.util.Iterator<org.molgenis.data.Entity> iterator()

getEntityType

public org.molgenis.data.meta.model.EntityType getEntityType()

getCapabilities

public java.util.Set<org.molgenis.data.RepositoryCapability> getCapabilities()

count

public long count()

Specified by:

count in interface org.molgenis.data.Repository<org.molgenis.data.Entity>

Overrides:

count in class org.molgenis.data.support.AbstractRepository

forEachBatched

public void forEachBatched(java.util.function.Consumer<java.util.List<org.molgenis.data.Entity>> consumer,
                           int batchSize)