SigPath

Package org.sigpath.adapter

Adapter classes for interfacing with the DataModel package.

See:
          Description

Interface Summary
EnzymaticAdapter Interface that provides database functionality regarding EnzymaticReaction objects.
MoleculeDisplay Interface for Representing a SigPath Molecule.
ReactionAdapter Adapter class for creating a new Reaction and storing it to the database.
 

Class Summary
EnzymaticAdapterImpl Implementing class that provides database functionality regarding EnzymaticReaction objects.
MoleculeDisplayImpl Implementation of MoleculeDisplay interface.
ReactionAdapterImpl Adapter class for creating a new Reaction and storing it to the database.
TissueAdapter Adapter class that connects sigpath to edu.mssm.crover.tools.tissue package.
TransientParameter Use this class outside of transactions, when persistent parameters cannot be used.
ValidationErrors Encapsulates all validation errors for a specific SigPath Submission.
 

Enum Summary
ValidationErrors.codes List of possible validation error codes.
 

Package org.sigpath.adapter Description

Adapter classes for interfacing with the DataModel package. Adapter classes were our first attempt to easily interface between XML and the Database. For the most part, the adapters (especially ReactionAdapterImpl and EnzymaticAdapterImpl) eventually became too unwieldy to maintain, and we adopted the task architecture instead.

Note that some of SigPath still uses the adapter classes, but all new database interaction should use the task architecture.


SigPath

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