To remove the database completely (while still keeping the tables etc) you
would again need to turn on cascading deletes and delete the appropriate
biodatabase row from the biodatabase table (or all of them if you have
more than one).
You cannot currently do this using the biojava interface. You would need
to code a JDBC statement to do it for you, or connect to the DB and issue
the SQL statement yourself.
- Mark
Martina <[EMAIL PROTECTED]>
Sent by: [EMAIL PROTECTED]
06/20/2005 05:43 PM
To: [EMAIL PROTECTED], BioJava <[email protected]>
cc: (bcc: Mark Schreiber/GP/Novartis)
Subject: [Biojava-l] _removeSequence
Hi,
Im trying to delete a sequence and recursivly all its features.
So:
for (SequenceIterator si = db.sequenceIterator(); si.hasNext();) {
Sequence s = si.nextSequence();
String name = s.getName();
s = null;
db.removeSequence(name);
}
But if I look in the database (MySQL 4.1.12) I can still see plenty
of entries and I have problems entering the same features again,
because of dublicate key error. I would like to know if
_removeSequence(String) in BioSQLSequenceDB is supposed to remove
features recursivly or just the features of the removed sequence?
If so - what is the best way do delete the features of the features
(and so on)? And how to empty the db completly?
Martina
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