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[protege-owl] Query: Upper-bound of Protege 3.4 individual capacity

william fitzgerald wfitzgerald at
Wed Oct 29 07:59:38 PDT 2008

Dear All,

What is the upper-bound on the amount of individuals in an OWL-DL 
ontology before Protege 3.4 crashes?

Personally, I have a latitude d510 running Ubuntu Hardy with 1GB RAM, 
latest *Full* version of Protege 3.4 build 513 and the java 1.6 VM.

I modified the heap space from 209715200 bytes to: 409715200  809715200

I have used DataMaster to import the "Vulnerabilities" Table from the 
Open Source Vulnerabilities Database (OSVDB) stored in a MySQL database 
also running on my laptop.

It contains 48,0000 instances when imported into the ontology.

I cannot import using DataMaster the other tables without a crash. I 
estimate if the entire OSVDB database was to be imported into an 
ontology there would be around 100,000 instances. I also intend on using 
instances from other sources, so my ontology has the potential to be large.

The current security ontology I have now populated with just the OSVDB 
Vulnerabilities Table is very slow to load when opening it with Protege IDE.

I then tried to work with what knowledge (instances) I had and to 
reclassify various individuals of the Vulnerability class into more 
specialised classed (for example, BufferOverflowVul). To do this I 
decided to write some SWRL rules to look at each individual and its 
data-properties (DataMaster creates data-properties and doesn't 
currently include an object properties option) to make a decision as to 
where that individual can be re-classified.

However, SWRL-Jess runs out of memory when I execute a single SWRL rule 
or query. Presumably this is due to the fact that JESS uses its own 
memory space (I could be wrong!). And the fact that protege uses a lot 
of the limited memory already.

How do people deal with large knowledge bases? Is it a matter of 
installing more RAM?

Kind regards,

|                   William M. Fitzgerald (MSc, BSc)                   |
|Researcher                                  | PhD Student             |
|Telecommunications Software & Systems Group,| Computer Science Dept., |
|ArcLabs Research and Innovation Centre,     | University College Cork,|
|Waterford Institute of Technology,          | Cork.                   |
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|Waterford.                                  |                         |
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