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.biosql General purpose Sequence storage in a relational database. 
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(java.lang.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(java.lang.String queryID)
           
 Sequence SimilarityPairBuilder.getAnnotatedSubjectSeq(java.lang.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 EmblCDROMIndexStore.store(Index index)
          store adds an Index to the store.
 Index EmblCDROMIndexStore.fetch(java.lang.String id)
           
 Sequence DummySequenceDB.getSequence(java.lang.String id)
           
 void DummySequenceDB.addSequence(Sequence seq)
           
 void DummySequenceDB.removeSequence(java.lang.String id)
           
 void TabIndexStore.store(Index indx)
           
 Index TabIndexStore.fetch(java.lang.String id)
           
 void IndexedSequenceDB.addFile(java.io.File seqFile)
          Add sequences from a file to the sequence database.
 Sequence IndexedSequenceDB.getSequence(java.lang.String id)
           
 Sequence SequenceDBLite.getSequence(java.lang.String id)
          Retrieve a single sequence by its id.
 void SequenceDBLite.addSequence(Sequence seq)
          Adds a sequence to the database.
 void SequenceDBLite.removeSequence(java.lang.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(java.lang.String id)
          Fetch an Index based upon an ID.
 Index BioIndex.fetch(java.lang.String id)
           
 Sequence HashSequenceDB.getSequence(java.lang.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(java.lang.String id)
           
 

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

Methods in org.biojava.bio.seq.db.biosql that throw IllegalIDException
 void BioSQLSequenceDB.createDummySequence(java.lang.String id, Alphabet alphabet, int length)
           
 void BioSQLSequenceDB.addSequence(Sequence seq)
           
 Sequence BioSQLSequenceDB.getSequence(java.lang.String id)
           
 void BioSQLSequenceDB.removeSequence(java.lang.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(java.lang.String id)
           
 

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

Methods in org.biojava.bio.seq.distributed that throw IllegalIDException
 Sequence DistributedSequenceDB.getSequence(java.lang.String id)