Uses of Class
org.biojava.bio.seq.db.IllegalIDException

Packages that use IllegalIDException

org.biojava.bio.program.das	Development client for the Distributed Annotation System.
org.biojava.bio.program.gff	GFF manipulation.
org.biojava.bio.program.ssbind	Creation of objects from SAX events using the BioJava BlastLikeDataSetCollection DTD.
org.biojava.bio.seq	Classes and interfaces for defining biological sequences and informatics objects.
org.biojava.bio.seq.db	Collections of biological sequence data.
org.biojava.bio.seq.db.biofetch	Client for the OBDA BioFetch protocol.
org.biojava.bio.seq.db.flat	Support for OBDA flatfile databases.
org.biojava.bio.seq.distributed	Sequences and SequenceDBs which are composed from data taken from a number of data sources.

Uses of IllegalIDException in org.biojava.bio.program.das

Methods in org.biojava.bio.program.das that throw IllegalIDException

Sequence

DASSequenceDB.getSequence(String id)

Uses of IllegalIDException in org.biojava.bio.program.gff

Methods in org.biojava.bio.program.gff that throw IllegalIDException

static SequenceDB

GFFTools.annotateSequences(SequenceDB seqs, GFFEntrySet ents) Annotates all sequences in a sequence DB with features from a GFF entry set.

Uses of IllegalIDException in org.biojava.bio.program.ssbind

Methods in org.biojava.bio.program.ssbind that throw IllegalIDException

Sequence	SimilarityPairBuilder.getAnnotatedQuerySeq(String queryID)
Sequence	SimilarityPairBuilder.getAnnotatedSubjectSeq(String subjectID)

Uses of IllegalIDException in org.biojava.bio.seq

Methods in org.biojava.bio.seq that throw IllegalIDException

Feature

RemoteFeature.Resolver.resolve(RemoteFeature rFeat) Resolve rFeat.

Uses of IllegalIDException in org.biojava.bio.seq.db

Methods in org.biojava.bio.seq.db that throw IllegalIDException

void	TabIndexStore.store(Index indx)
Index	TabIndexStore.fetch(String id)
Sequence	SequenceDBLite.getSequence(String id) Retrieve a single sequence by its id.
void	SequenceDBLite.addSequence(Sequence seq) Adds a sequence to the database.
void	SequenceDBLite.removeSequence(String id) Remove the sequence associated with an ID from the database.
void	IndexStore.store(Index indx) Add the Index to the store.
Index	IndexStore.fetch(String id) Fetch an Index based upon an ID.
void	IndexedSequenceDB.addFile(File seqFile) Add sequences from a file to the sequence database.
Sequence	IndexedSequenceDB.getSequence(String id)
Sequence	HashSequenceDB.getSequence(String id)
void	EmblCDROMIndexStore.store(Index index) store adds an Index to the store.
Index	EmblCDROMIndexStore.fetch(String id)
Sequence	DummySequenceDB.getSequence(String id)
void	DummySequenceDB.addSequence(Sequence seq)
void	DummySequenceDB.removeSequence(String id)
Index	BioIndex.fetch(String id)

Uses of IllegalIDException in org.biojava.bio.seq.db.biofetch

Methods in org.biojava.bio.seq.db.biofetch that throw IllegalIDException

Sequence

BioFetchSequenceDB.getSequence(String id)

Uses of IllegalIDException in org.biojava.bio.seq.db.flat

Methods in org.biojava.bio.seq.db.flat that throw IllegalIDException

Sequence

FlatSequenceDB.getSequence(String id)

Uses of IllegalIDException in org.biojava.bio.seq.distributed

Methods in org.biojava.bio.seq.distributed that throw IllegalIDException

Sequence

DistributedSequenceDB.getSequence(String id)