CIFOBJ

Description

The CIFOBJ class library was developed by the Nucleic Acid Database Project (NDB) in order to provide an object view of the mmCIF dictionary. The class library has two components. The first component builds a persistent store of objects of type: item, sub-category, category, and dictionary. Each object is a container for all relevant attributes for that object type. CIFOBJ accesses and checks the dictionary contents using methods provided by CIFLIB. The CIFOBJ loader class assembles the dictionary objects and passes these to the object storage manager. The second component of the CIFOBJ class library provides methods for building dictionary objects from the persistent store. CIFOBJ implements methods to access all of the attributes for each object type and returns this information as a string or an array of strings.

Distribution

Status

CIFOBJ is distributed from the Rutgers site of the Research Collaboratory for Structural Bioinformatics (RCSB) and forms an important component of the software systems used in the Protein Data Bank. Comments should be directed to jwest@rcsb.rutgers.edu.

Language and platform

The software is written in C++ and should run on versions of Unix with suitable C++ compilers.

Documentation

  • Installation of the loader class library: For Unix-type installations, copy the compressed tar file cifobj-loader-v6.102-prod-src.tar.Z into an empty directory; uncompress and extract files using the Unix tar utility. Build the application using the make utility; run test programs with 'make test':
     cp cifobj-loader-v6.102-prod-src.tar.Z /g/h/i; cd /g/h/i
    uncompress cifobj-loader-v6.102-prod-src.tar.Z; tar xvf cifobj-loader-v6.102-prod-src.tar
    cd cifobj-loader-v6.102-prod-src
    make
    make test
    If compress or tar are unavailable, individual source files may be saved to the build directory.
    For more details see the Installation Notes
  • Installation of the builder class library: For Unix-type installations, copy the compressed tar file cifobj-builder-v4.101-prod-src.tar.Z into an empty directory; uncompress and extract files using the Unix tar utility. Build the application using the make utility; run test programs with 'make test':
     cp cifobj-builder-v4.101-prod-src.tar.Z /g/h/i; cd /g/h/i
    uncompress cifobj-builder-v4.101-prod-src.tar.Z; tar xvf cifobj-builder-v4.101-prod-src.tar
    cd xvf cifobj-builder-v4.101-prod-src
    make
    make test
    If compress or tar are unavailable, individual source files may be saved to the build directory.
    For more details see the Installation Notes
  • CIFOBJ Reference Guide ( HTML | PostScript | PDF format )
  • CIFLibCommon Reference Guide ( HTML | PostScript | PDF format )

Other versions

  • Versions v7 and later are distributed under the name DICT-OBJ-FILE

Terms and conditions of use

Copyright in the software © Rutgers - The State University of New Jersey
Authors: Steven Schirripa and John Westbrook

The software is distributed here under licence from the Protein Data Bank/RCSB. Use of the software is governed by the PDB software licence. Queries concerning any other use should be directed to sw-help@rcsb.rutgers.edu.