V5 migration

There are significant changes to the database schema in this new version of the software. Existing databases must be migrated to v5 using the migration script. Here are the steps:

1. Backup the current database

mysqlhotcopy --port=XXXX -u XXXXXX -p XXXXXX coge_db backup_dir 

2. Update the code

cd CoGeX ; svn update cd CoGe_web ; svn update cd /opt/apache/CoGe ; svn update 

3. Run the migration script on the database

perl CoGeX/scripts/migrate_coge5.pl -db=coge_db -u=XXXXXX -pw=XXXXXX 

The migration script takes ~2 minutes to run.

4. Restart mysql

sudo service mysql restart