[Biojava-l] Are there EJB entities for BioSQL?

[Andreas Prlic]

Hi Jan,

that really depends on what you want to do. My first response based on
your comment would be to take a look at the Distributed Annotation
System and the various DAS clients. We can say more if you tell us a
bit more specific what your intention is.

Andreas


On Mon, Aug 6, 2012 at 2:10 AM, Jan T Kim <jttkim at googlemail.com> wrote:
> Hi Andreas and All,
>
> On Fri, Aug 03, 2012 at 02:21:01PM -0700, Andreas Prlic wrote:
>> Hi Jan,
>>
>> There is no biosql ORM mapping for biojava 3 currently. If you need
>> something like that you would need to use biojava 1 or patch biojava
>> 3...
>
> ok -- so is there any general suggestion / recommendation / best
> practice for building applications that involve handling annotated
> sequence data and a web UI?
>
> Best regards, Jan
>
>
>> Andreas
>>
>>
>>
>> On Fri, Aug 3, 2012 at 5:47 AM, Jan T Kim <jttkim at googlemail.com> wrote:
>> > Dear All,
>> >
>> > is there a set of EJB 3 entities that correspond to BioSQL available?
>> > I've noticed that there are is a Hibernate mapping in biojavax [1, 2] --
>> > is that the recommended ORM solution?
>> >
>> > Personally, I'd prefer a set of classes, with the suitable annotations
>> > from the javax.persistence package applied (@Entity, @Id etc.) to match
>> > the BioSQL tables.
>> >
>> > Apparently there have been initiatives in this direction (e.g. [3]), has
>> > any of these made it into mainstream BioJava? If not, why not?
>> >
>> > Best regards, Jan
>> >
>> > [1] http://biojava.org/wiki/BioJava:BioJavaXDocs
>> > [2] http://www.biosql.org/wiki/BioJava_BioSQL_ORM
>> > [3] http://www.biojava.org/pipermail/biojava-l/2008-October/006387.html
>> > --
>> >  +- Jan T. Kim -------------------------------------------------------+
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>
> --
>  +- Jan T. Kim -------------------------------------------------------+
>  |             email: jttkim at gmail.com                                |
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>  *-----=<  hierarchical systems are for files, not for humans  >=-----*
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