STAR Dictionary Definition Language: Initial Specification

The Self-defining Text Archival and Retrieval (STAR) format provides a low-level data description from which Crystallographic Information Files (CIFs) are derived. STAR is independent of the two Dictionary Definition Languages (DDLs) currently used in crystallography, is used to represent scientific data beyond crystallographic data and is thus quite general. This paper describes an object-oriented approach to representing STAR files (00STAR) which is then used in several applications of importance to crystallographers. Applications are described for validating the integrity of STAR-compliant files, extracting subsets of data from STAR files and converting STAR files to HypcrText Markup Language (HTML) for use with a Web browser. SunOS 4.1 binaries, Objective-C source code and instructions for compiling and testing on other Unix-based hardware platforms are available via the World Wide Web from http:// www.sdsc.edu/pb/cif/OOSTAR.html.

Section: Introductionmentioning

confidence: 99%

CIF Applications. IX. A new approach for representing and manipulating STAR files

Chang¹,

Bourne²

1998

“…The mmCIF dictionary (Fitzgerald et al, 1996;Bourne et al, 1997) defines the structural parameters used in macromolecular studies and is based on an extended dictionary definition language, referred to as DDL2 (Westbrook & Hall, 1995). DDL2 employs stronger relational attributes than the DDL1 (Hall & Cook, 1995) version of the dictionary language used for the Core and other dictionaries. CYCLOPS2 has been designed to process dictionaries based on either DDL1 or DDL2.…”

Section: Introductionmentioning

confidence: 99%

CIF Applications. VII. CYCLOPS2: extending the validation of CIF data names

Bernstein¹,

Hall²

1998

CYCLOPS2 is a major revision of the program CYCLOPS [Hall (1993). J. Appl. Crvst. 26,[482][483][484][485][486][487][488][489][490][491][492][493][494] which is used, in conjunction with Crystallographic Information File (CIF) dictionaries, to validate names in an ASCII file. The validated files may contain CIF or non-CIF data, text documents or a program source. CYCLOPS2 is able to handle both DDL1 and DDL2 dictionaries, the longer mmCIF data names and can accommodate multiple dictionaries. This version is written using the CIFtbx2 [Hall & Bernstein (1996). J. AppL Cryst. 29, 598-603] library of Fortran functions and is portable to a variety of platforms.

“…The core dictionary of crystallographic definitions was developed using the DDL proposed by Cook and Hall (Cook, 1991;Hall & Cook, 1995).…”

Section: Introductionmentioning

confidence: 99%

CIF Applications. VI. CIFLIB: an application program interface to CIF dictionaries and data files

Westbrook¹,

Hsieh²,

Fitzgerald³

1997

A software library is described that provides simple and convenient access to information in Crystallographic Information File (CIF) dictionaries and data files. This library gives the application programmer a collection of high-level functions that can be used to process and check data stored in the CIF format using the full detail of the CIF dictionary of crystallographic terminology. Two applications are presented that demonstrate the features of the library: a CIF browser and a CIF dictionary-to-HTML converter.