dbshowall

Function

Description

dbshowall displays on-screen information on public databases organised by category. One or more categories may be selected from a list. Optionally, the information may be written to an output file in plain text or HTML.

The EDAM ontology in the EMBOSS data file edam.obo is used. The catalogue of public databases in the EMBOSS data file db.dat is used and the EDAM classification ('EDAMres') field is queried.

Usage

Command line arguments


Input file format

Output file format

The output file (plain text format) is an excerpt of and (by default) in the same format as the EMBOSS data file db.dat. The format of the file is explained in comments at the top of that file. Optionally, the data can be tabulated.

If the -html qualifier is specified, then the output will be a web page suitable for viewing in any browser.

Data files

The EMBOSS database information file (db.dat) and the EDAM ontology (edam.obo) must be installed in the EMBOSS data directory and indexed. This is done automatically for typical installations.

Notes

None.

References

Warnings

None.

Diagnostic Error Messages

None.

Exit status

It exits with a status of 0.

Known bugs

None.

Author(s)

This application was modified by

History

Target users

Comments