Archive for the 'Programming' Category
In the latest effort to make myself obsolete by the end of this year, we are looking for a software developer to help us better make our data available to both humans and machines. The main responsibilities of this position will be the further development of the UniProt web site and the UniProt RDF distribution.
My colleagues regularly ask me if I couldn’t provide them with some graphic view of my code, looking at source code is so tedious etc. I’ve looked at various UML tools in the past, but never managed to get any truly useful visualization out of any of them. But maybe the problem with UML is that it’s so limited to two dimensions? Enter Relief, a tool that visualizes code in three dimensions!
In order to bulk-load RDF data into Oracle (Spatial) 11g, the data needs to be converted to N-Triples first. If the data set is large, this step can add quite a bit of overhead, which is why I decided to benchmark and compare several options.
The best choice of virtual machine is of course dependent both on the application and on the hardware the application is running on; here are the conclusions of a performance comparison with the latest batch of Java virtual machines for a web application that makes heavy use of BerkeleyDB and Lucene on an off-the-shelf Intel machine with 64-bit extensions.
Google now allows you to create custom search engines. I used this to set up a search engine that searches in well know life sciences sites.