Skip Navigation

This Article
Right arrow FREE Full Text (Print PDF) Freely available
Right arrow Comments: Submit a response
Right arrow Alert me when this article is cited
Right arrow Alert me when Comments are posted
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Schaftenaar, G.
Right arrow Articles by Etzold, T.
Right arrow Search for Related Content
PubMed
Right arrow Articles by Schaftenaar, G.
Right arrow Articles by Etzold, T.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© Oxford University Press

A Tcl-based SRS v. 4 Interface

Gijs Schaftenaar , Koen Cuelenaere , Jan H. Noordik and Thure Etzold 1

CAOS/CAMM Center, Faculty of Science, Nijmegen University Toernooiveld, 6525 ED Nijmegen, The Netherlands
1European Molecular Biology Laboratory Meyerhofstrasse 1, Postfach 102209, W6900 Heidelberg, Germany

A new SRS (Sequence Retrieval System) user interface has been developed for SRS v. 4. Key features are the support of simple character-oriented (ASCII, VT100) terminals by coding in Tcl augmented by some dedicated Curses calls, support of graphics terminals in an X-Windows version by using the Tk extension to Tcl, and support of a client/server environment by using the TDP extension to Tcl.

The Sequence Retrieval System (SRS) is a powerful tool for the fast extraction of information from flat file libraries (Etzold and Argos, 1993) and has rapidly established itself as a major research instrument for the bio-informatics community. Internally the system employs a query language, which is user accessible through either a command-line user interface, ‘getz’, or a more user friendly, character-oriented window interface. For SRS versions up to release v. 3, this window interface supported VT100-compatible terminals. Because of major changes in the underlying SRS libraries, the v. 3 interface became fully incompatible with the most recent version of SRS (v. 4.x). Thus the many users with only a simple terminal/terminal emulator connection were either deprived of access to SRS, or were forced to use the ASCII WWW client LYNX. This prompted us to develop a character-oriented SRS v. 4 window interface with the look and feel of its SRS v. 3.1 predecessor and coded to be as library independent as possible to maintain compatibility with future SRS releases. In addition, some ‘extensions’ were coded to widen the applicability to graphics terminals and to a client/server environment.

At the time of preparation of this paper, the SRS interface described had been implemented in one form or another on most EMBnet nodes and on all the platforms given in Table II. The code has been stored at the EMBL in Heidelberg, where it will be available, with installation instructions and scripts, as part of the SRS distribution.

Received on September 4, 1995; accepted on December 8, 1995

Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?




Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.