Package org.rcsb.openmms.meta

Provides classes and interfaces that create and manipulate a macromolecular structure metamodel based on the mmCIF dictionary.

See:
Description

Interface Summary

ModuleTypes

Contains definitions for the module types used in Entry Implementations and the Foundries.

Class Summary

AllRootTrans	Generate Cif metamodel Hierarchary for the entire mmCIF dictionary
CategoryTrans	Class to represent "Categories" in Cif metamodel
CatWriter	Metamodel visitor that generates the Java code for the category loaders which process the parsed string data in an mmCIF file and place it into a structure specific for that mmCIF category.
CompactRootTrans	Generate a DB developement Cif to Idl Translation Hierarchary
ConstantTrans	Class for representing IDL constants
DevRootTrans	Generate Standard (OMG/LSR-1.0) Cif to Idl Translation Hierarchary
DirectiveTrans	Class for creating IDL directives, e.g.
EntryWriter	This class writes all the Java code that implements the Entry and "Sub" Entry methods.
ExceptionFieldTrans	Class for field values for Exceptions in Cif metamodel
ExceptionTrans	Class to represent "Exceptions" in Cif metamodel
FieldTrans	Class for "Fields" in Cif Metamodel
FileTrans	Class representing "Files" in Cif metamodel.
GenAccessMethods	Generates the "list" accessor methods for a Corba interface.
GenCifParents	Traverses the metamodel and fills in the parent node links.
GenConstants	Generates and IDL Constants required in the metamodel
GenDictionary	Generate a list of the Dictionary Categories and Items that are required by the field definitions specified.
GetListMethodTrans	Class for used for representing the "get-method" on list of mmCIF structures
IdlWriter	Traverse metamodel instance and generate CORBA IDL specification
InitSqlWriter	Visitor class to traverse the metamodel and generate the code to initialize the RDB tables.
InsertWriter	Visitor subclass that writes the java JDBC code for inserting data into the relational database (dbinsert).
InterfaceTrans	Class to represent "Interfaces" in Cif metamodel
LinkWriter	Create a table that contains all the bindings between a category name and the category data loader
ListTrans	Class for representing "Lists" i.e. sequences of mmCIF structures
LsrRootTrans	Generate Standard (OMG LSR/1.0) Cif to Idl Translation Hierarchary
MatrixTrans	Class for Matrices in Cif metamodel
MethodTrans	Class for "Methods" in Cif to Idl Translation
MMSExpr	Generate Macromolecular Structure Expressions The following command line options are recognized my MMSExpr: debug=debug_level Set error and status reporting message level debug <= 0 no messages debug == 1 basic status messages debug >= 5 trace Corba If present on the command line, Corba IDL definitions are generated.
ModelDtdWriter	TransVisitor subclass for writing XML DTD
ModuleTrans	Class for "Modules" in Cif to Idl Translation
RootTrans	Class for the "Root" of the mmCIF translation metamodel
SelectWriter	Visitor subclass that writes the java JDBC code for reading data from a relational database into the Entry Data Structures.
SequenceTrans	Class for representing sequences (arrays) in the metamodel
SqlWriter	Common Base class for metamodel Visitors that generate SQL code
StdRootTrans	Generate a DB developement Cif to Idl Translation Hierarchary
StringStruct	StringStruct can be used to create a tree of string buffers where new text can be dynamicly added to any buffer in the the tree.
StructureTrans	Class for representing "Structures" in Cif metamodel
SubfieldTrans	Class for representing "Sub-Fields" of a Struct-type field
TableWriter	Visitor class for generate SQL code that creates relation DB tables
TestRootTrans	Generate a small "toy" Cif metamodel Translation Hierarchary for development and testing purposes.
Trans	Base class for Cif metamodel Translation elements
TransVisitor	Base class TransVisitor or "Transformation Visitor".
TypeDefTrans	Class for creating IDL typedefs
ValuetypeTrans	Class for "Valuetypes" in Cif metamodel
VectorTrans	Class for Vectors in Cif to Idl Translation
VImplWriter	Generates the initialization code for IDL generated valuetypes

Exception Summary

TransGenException

Signals an error in the metamodel translation

Package org.rcsb.openmms.meta Description

Provides classes and interfaces that create and manipulate a macromolecular structure metamodel based on the mmCIF dictionary.