Ok, so I tracked that problem down eventually. Answer is quite simple.
Make sure $libformat.contains is set to @PROTSEQ_DATA or @DNASEQ_DATA as
appropriate. That allows the entries to be recognised as sequences and
allows applications to be run on them.
Well, it should do, but then I came across a further problem. The
application has to be set up to be of $library.type set to user, with
the files being located in the directory corresponding to the current
session id. However SRS appears unable to launch applications from these
types of database as it is unable to find the file containing the
sequences (the file that was indexed). If you switch the directory
containing the files ($libloc.dir) to be a hard coded directory rather
than the current session directory then it works fine, but then multiple
users would trash each others files.
Has anyone encountered something like this?
Suggestions are welcome.
Dr. Tim Dudgeon Phone: 01865 748747
British Biotech Pharmaceuticals Plc. FAX: 01865 717598
Watlington Road, Oxford, OX4 5LY, UK email: dudgeon at britbio.co.uk