This week I have been porting the PubChem plugin for Bioclipse 1.2 to the new manager-based architecture.

As of tonight, rdf.openmolecules.net links to the chemistry DBPedia (1816 chemical compounds), for which I used the SPARQL given in DBPedia: lookup and autocomplete of chemistry . It’s first of several steps to extend rdf.openmolecules.net to link up various chemistry database.

Ola has released the second beta for Bioclipse 2.0. Things are getting along, and I will not go into details on the molecules table Arvid is working on, the 1GB+ SD file support, the validating CML editor , the support for XMPP services , or the brand new welcome page which will guide new users around in what Bioclipse has to offer.

Did others notice this too?

On the DBPedia discussion mailing list there was a post on a nice web page which allows you to look up things, and which features a autocomplete edit field.

I released CDK 1.1.5 today.

Rich just posted an interesting read on Web-Centric Science, after a gauntlet thrown down by The Realm of Organic Synthesis (TROS).

I do not typically make complaints in my blog, so consider this a request for advice in good practices ;)

ChemSpider has set up embeddable chemistry widget (per Cameron’s idea), much like YouTube. I just have to try that.

I gave this 10 minute presentation on MetWare this afternoon at the International Metabolomics Workshop :

Git is nice. Nicer to some than to other, that is true. GitReady just learned me how to calculate commit message in a few seconds: git shortlog -s -n. For the whole Bioclipse and CDK commit history. Seconds. Here they are.