public abstract class VariantIndexer extends Object
Modifier and Type | Field and Description |
---|---|
protected org.rocksdb.RocksDB |
dbIndex |
protected com.fasterxml.jackson.databind.ObjectMapper |
jsonObjectMapper |
protected com.fasterxml.jackson.databind.ObjectWriter |
jsonObjectWriter |
Constructor and Description |
---|
VariantIndexer(org.opencb.biodata.formats.variant.io.VariantReader variantReader,
int maxOpenFiles,
boolean forceCreate) |
Modifier and Type | Method and Description |
---|---|
void |
close() |
org.rocksdb.RocksDB |
getDbIndex() |
String |
getDbLocation() |
void |
open() |
void |
run() |
protected abstract void |
updateIndex(List<org.opencb.biodata.models.variant.Variant> variantList) |
protected com.fasterxml.jackson.databind.ObjectMapper jsonObjectMapper
protected com.fasterxml.jackson.databind.ObjectWriter jsonObjectWriter
protected org.rocksdb.RocksDB dbIndex
public VariantIndexer(org.opencb.biodata.formats.variant.io.VariantReader variantReader, int maxOpenFiles, boolean forceCreate)
public org.rocksdb.RocksDB getDbIndex()
public String getDbLocation()
public void open()
public void run() throws IOException, org.rocksdb.RocksDBException
IOException
org.rocksdb.RocksDBException
protected abstract void updateIndex(List<org.opencb.biodata.models.variant.Variant> variantList) throws IOException, org.rocksdb.RocksDBException
IOException
org.rocksdb.RocksDBException
public void close()
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