Package org.rcsb.strucmotif.io

Class InvertedIndexImpl

java.lang.Object

org.rcsb.strucmotif.io.InvertedIndexImpl

All Implemented Interfaces:

InvertedIndex

@Service
public class InvertedIndexImpl
extends Object
implements InvertedIndex

The implementation of the inverted index.

Constructor Summary

Constructors

Constructor	Description
InvertedIndexImpl(MotifSearchConfig motifSearchConfig)	Construct a inverted index instance.

Method Summary

Modifier and Type	Method	Description
void	delete(Collection<String> removals)	Removes all information on a set of structures from the index.
protected InputStream	getInputStream(ResiduePairDescriptor residuePairDescriptor)	Acquire the input stream for a descriptor.
void	insert(ResiduePairDescriptor residuePairDescriptor, Map<String,Collection<ResiduePairIdentifier>> residuePairOccurrences)	Insert operation for new data.
Stream<Pair<String,InvertedIndexResiduePairIdentifier[]>>	select(ResiduePairDescriptor residuePairDescriptor)	Perform lookup for a particular bin.

Methods inherited from class java.lang.Object

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

Constructor Details

InvertedIndexImpl

public InvertedIndexImpl(MotifSearchConfig motifSearchConfig)

Construct a inverted index instance.

Parameters:

motifSearchConfig - the config

Method Details

insert

public void insert(ResiduePairDescriptor residuePairDescriptor,
 Map<String,Collection<ResiduePairIdentifier>> residuePairOccurrences)

Description copied from interface: InvertedIndex

Insert operation for new data.

Specified by:

insert in interface InvertedIndex

Parameters:

residuePairDescriptor - the bin for which new data should be written

residuePairOccurrences - the data to append to this bin - keys are pdbIds, values are all words of this descriptor

select

public Stream<Pair<String,InvertedIndexResiduePairIdentifier[]>> select(ResiduePairDescriptor residuePairDescriptor)

Description copied from interface: InvertedIndex

Perform lookup for a particular bin.

Specified by:

select in interface InvertedIndex

Parameters:

residuePairDescriptor - the bin for which occurrences should the lookup be performed

Returns:

a Stream of all occurrences, grouped by their structure identifier

getInputStream

protected InputStream getInputStream(ResiduePairDescriptor residuePairDescriptor)
                              throws IOException

Acquire the input stream for a descriptor.

Parameters:

residuePairDescriptor - the descriptor of interest

Returns:

the corresponding input stream

Throws:

IOException - reading failed

delete

public void delete(Collection<String> removals)

Description copied from interface: InvertedIndex

Removes all information on a set of structures from the index.

Specified by:

delete in interface InvertedIndex

Parameters:

removals - what to remove