Package org.biojava.bio.seq.db.biosql
Class BioSQLSequenceDB
java.lang.Object
org.biojava.utils.AbstractChangeable
org.biojava.bio.seq.db.biosql.BioSQLSequenceDB
- All Implemented Interfaces:
SequenceDB,SequenceDBLite,Changeable
Deprecated.
Use hibernate and org.biojavax.bio.db.*
SequenceDB keyed off a BioSQL database. This is an almost-complete
implementation of the BioJava Sequence, SequenceDB, and Feature interfaces,
and can be used in a wide range of applications.
Note: It now uses BioSQL schema version 1.0 (Post Singapore)
All previous versions are no longer supported.
- Since:
- 1.3
- Author:
- Thomas Down, Matthew Pocock, Simon Foote, Len Trigg, Mark Schreiber, Richard Holland
-
Field Summary
Fields inherited from interface org.biojava.bio.seq.db.SequenceDBLite
SEQUENCES -
Constructor Summary
ConstructorsConstructorDescriptionBioSQLSequenceDB(String dbURL, String dbUser, String dbPass, String biodatabase, boolean create) Deprecated.Connect to a BioSQL database.BioSQLSequenceDB(String dbDriver, String dbURL, String dbUser, String dbPass, String biodatabase, boolean create) Deprecated.Connect to a BioSQL database.BioSQLSequenceDB(DataSource ds, String biodatabase, boolean create) Deprecated. -
Method Summary
Modifier and TypeMethodDescriptionaddOntology(Ontology onto) Deprecated.voidaddSequence(Sequence seq)