21 May '09 02:07
I changed the subject because we are diverting from the original question.
Stefan Hoops wrote:
> On Wed, 20 May 2009 09:47:51 +0100
> Nicolas Rodriguez <firstname.lastname@example.org> wrote:
>>> Another often mentioned concern is the ability to deal with large
>>> models. I think that java is not the ideal way to address this.
>> Again, an other misconception, most applications dealing with
>> terabytes of data developed at EBI are written in Perl or Java.
>> And, the most important point is that java application are tolerant
>> to errors and reliable and performance is not anymore a problem this
> As long as you stream the data I agree that Perl and java will do a
> sufficiently good task. However, the memory overhead of holding the
> data is far larger than in C (or C++). As far as I recollect is most of
> the EBI terabytes of data in databases and the Perl and java programs
> handle only the return of SQL queries.
Just for infos, no, the majority is not handle by database but flat files.
The ebi general search (EB-eye) is using XML dump of oracle and mysql DB
and is entirely in java.
All the textmining services, searching medline are also based on flat
file and java.
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