prosextract
Function
Description
Takes the IDentity, ACcession number and motif PAttern line
contents from prosite entries. Also converts the PAttern into a regular
expression and writes these four pieces to an output file - defaulted to
be called 'prosite.lines'.
Usage
The output files named after the prosite accession numbers can now
also be seen in the prosite directory. This files are automatically
created after prosextract is run.
Command line arguments
Input file format
These files must be the "prosite.dat" and "prosite.doc" file of a
Prosite distribution, containing all current prosite data.
Output file format
These files are held in the prosite subdirectory of the emboss data
directory. The default names are "prosite.lines" and "PS*****"
(accession number documentation files)
Data files
See Input file format above.
Notes
This program is most useful when used as a prerequisite for patmatmotifs.
References
- Bairoch, A., Bucher P. (1994) PROSITE: recent developments. Nucleic
Acids Research, Vol 22, No.17 3583-3589.
- Bairoch, A., (1992) PROSITE: a dictionary of sites and patterns in
proteins. Nucleic Acids Research, Vol 20, Supplement, 2013-2018.
- Peek, J., O'Reilly, T., Loukides, M., (1997) Unix Power Tools, 2nd
Edition.
Warnings
The program will warn the user if the input file is incorrectly
formatted.
Diagnostic Error Messages
As in warnings.
Exit status
Always exits with status 0
Known bugs
Author(s)
History
Target users
Comments