dear all,
release 4.05 of SRS is available now. Get the file
pub/software/unix/srs/srs4_05.tar.gz via anonymous ftp from
felix.embl-heidelberg.de
There were some problems installing SRS with the new httpd from NCSA as
reported by Jack Leunissen and Steve Taylor which should be fixed now. The
cgi's and the document files are declared to reside now in two different
directories (see the installation procedure in the README of the distribution or
http://www/srs/srsman_install.html. Please tell me if it works or if there are
still problems with it.
I added Tom Boutell's 'gd' library for creating GIF images and a new program
'srspict' that creates a picture with the databank network and a link diagram.
for the network it needs a file with the coordinates of all databanks which you
can create with a tcl/tk script (primitive graph editor) ...instructions in README.
The last important change is the complete replacement of the algorithm for finding
the shortest path in the library network ...which was about to crack on large
systems. The new algorithm is much faster and should work even with several hundred
databanks;-).
Here is the complete list of changes since srs4.04:
1995/04/05
if a flat file is not accessible, eg, the file est.dat from
embl then this will be mentioned only once ...eg during
listing a list of embl entries together with selected
fields ...still the names for these entries can be
displayed
1995/05/05
Added function LibIsDataType which tells whether a
databank contains "protein" or "dna" sequences
...function can be easily extended for other data types
1995/05/05
GCG formatted list file for features does not list
"Strand" for protein sequences
1995/05/05
enhanced srscheck to look at all single indices if they
need rebuilding or compression
1995/05/05
fixed problem with retrieving integer ranges ...integers
are no longer treated as floats
1995/05/05
prep_srs puts the srs directories at the begin of the
PATH variable
1995/05/05
the '?' for begin and end positions in swissprot are now
understood
1995/05/09
a number of blast files can now be indexed - each entry
witll receive a name composed of filename, number
within that file, and the sequence found (eg, swissprot
name). The file names are stored in the IDX file
1995/05/09
added new attribute isSystem for #field - all fields
marked with that should be ignored by user interfaces -
use LibIsField (field, "system") to find out.
1995/05/10
Replaced the algorithm for finding the shortest path in
the library network ...now there is NO limit left to
hinder its growth
1995/05/17
Added buffer function for matching regular
expressions
1995/05/17
Changed script module so that it understands variables
in labels and in the text
1995/05/19
the script module provides now a utility to check
number and type of arguments when printing from a
label with print arguments
1995/05/26
executables and document files can now be in different
directories
1995/05/26
stdout for SRSWWW is no longer buffered. This fixes
a problem with the httpd on OSF1
..have fun
regards
thure
--
===============================================================================
Thure Etzold | EMBL
E-mail: etzold at embl-heidelberg.de | Postfach 10.2209
Tel: (49) 6221 387529 | 69012 Heidelberg
Fax: (49) 6221 387517 | Germany
