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Creating the first database

When the postgresql server is running, the parent database and user accounts created and you have access to the server, you can start to create your first database.
To do this, just select the option 'New DB' in the 'File'-menu of T-ACE. A 'New database'-window appears where you can set the name of the new database. Click the 'OK'-button and a new, empty database with the given name will be created.
The best way to fill a database is to use an ACE file. The ACE file contains all information about the contigs and the positioning of their corresponding reads. To add an ACE file to your database open the 'Edit DB'-cascade of the 'Edit'-menu and select the 'Add ACE file'-option. A file dialog opens and you can select your ACE file. Now all contigs and reads in the ACE file will be written into the database. The name of every contig from the ACE file will be composed of database name and the contig ID from the ACE file. Loading the ACE file into the database takes a lot of time, to see if the upload has finished you can look at the 'Process'-tab of T-ACE.
A normal fasta file, containing nucleotide sequences, can also serve as input, but the added contigs would not have any read and coverage information available.
Now the run information should be added. This happens through the 'Add run'-button in the 'Database info'-tab. Just set a 'Run ID' and add the original read fasta file, all other fields can be modified later.
At last some updates should be run. For this open the 'Edit DB'-cascade of the 'Edit'-menu and go to the 'Update'-cascade. From here you should execute 'coverage', 'database info' and 'read status'. The other update options are only of interest after adding some annotation data.


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