[GeneX-dev] Server 1.0.0-pre6, DB 0.8.1

[<ja...@op...>]

Hey,

So, it took longer than I expected. Two attempts at the server
release, and three attempts on the DB release...

I do not yet have a way to upgrade an existing DB via XML. That will
have to happen on the next DB update, sorry.

I also put the DB dumps in the genex public ftp site:
   ftp://genex.sourceforge.net/pub/genex/

NOTICE: You must install two new pieces of software for this release

* You must install one new software utility: dtd2html from
  perlSGML.2001Jan23.tar.gz off: ftp://genex.sourceforge.net/pub/genex/

* There are two new required CPAN modules: 
  - Class::ObjectTemplate::DB 
  - Term::ReadKey

RELEASE NOTES:

New user-defined configuration options:
===========================
 * CURATOR_EMAIL -- person/group to receive exp set submission notices
 * GENEX_SECRET -- LoginUtil.pm MD5 secret

Changes to install-all
======================
- no more chown() calls (super user no longer required)
- dtd2html automatically creates HTML versions of DTDs
- genex UserSec account information installed 
- all commands run quiet unless --VERBOSE is used
- RCluster installation better integrated
- passwords no longer echoed to command line

Changes to Genex.pm
===================
- Now uses permanent namespace, Bio::Genex
- Now uses Class::ObjectTemplate::DB instead of ObjectTemplate 
- All classes related to Canonical Sequence Feature are gone


Changes to db2xml
=================
- Experiment set caching now works
- User/Password authentication is now optional
- contact information retrieved directly through new contact methods instead of indirectly via UserSec entries

Changes to WWW
==============
- more pages substituted to remove hard-code URLs

Bugs Fixed
===========
- all NCGR hard-code emails replaced with CONTACT_EMAIL or CURATOR_EMAIL
- fixed write permissions all on directories
- control bundle download directory now in CGITMPDIR (no more write permission in HTMLDIR)
- fixed get_objects() for linking table classes
- check_password() no longer calls die() on bad password
- RCluster queuemaster is now started in install-all