Some Stuff

This is a better picture of what the dependencies were like in bioclipse: The dashed lines indicate some kind of vague boundary between plugin 'layers'. There's no such concept of a plugin layer, as far as I know, but still. Of course, there is the net.bioclipse.core plugin, which could be considered to be an inner core. It may be an artificial distinction to make between the 'data' and 'analysis' layers, but basically the data plugins do the open-edit-save cycle mentioned here  while the analysis plugins do more. Specifically, the seneca and medea plugins can produce spectra data from molecule data.

More pictures, mainly for my own benefit. First, a possible refactoring of some bioclipse modules: Where boxes are modules, and lines indicate dependencies. There's a lot of work in that arrow! Only the compute plugin and the seneca plugin have been ported (however incompletely) so far. The second image shows the extension points for the putative CASE plugin. One is the judge extension point that already exists in the seneca plugin, and the other is a structure source: This is more general than just a structure generator extension point, and could also include sources from files or databases. I think that this makes sense...