[Biopython-dev] zxJDBC support for BioSQL

[Kyle Ellrott]

I've push pushed a patch to the BioSQL code that enables zxJDBC support.
This means that Jython can now run BioSQL through mysql.  (SQLite hasn't
been ported to Java yet)
zxJDBC is a Jython module included in the standard distribution that
provides a PythonDB interface through the java sql interfaces.  I've only
ran the unit tests using the mysql-connector, but it should theoretically
work with Oracle as well.
The biggest issues for changing code:
 - Java expects ? instead of %s, so sql strings have to be altered (I
override the execute method in the DBUtils to run a regular express before
execution)
 - A Sql string with a=? works, one with a='?' does not (Loader.py had some
examples of this)
 - Java returns unicode, not strings (recent patch to the mainline fixes
this)

Code can be found at http://github.com/kellrott/biopython

Kyle