Bioclipse-JChemPaint

The Uppsala and EBI CDK-teams have been working hard on finishing the rewrite of JChemPaint I started with Niels earlier. While the EBI-team focused on the applet (and Swing application), the Uppsala team, obviously, focused on the SWT side, for integration into Bioclipse. The new JChemPaint is reaching a useful state, and below is a quick update screenshot something Arvid has been working on:

less than 1 minute read

No, PDFs really do suck!

A typical blog by Peter MR made (again), The ICE-man: Scholary HTML not PDF, the point of why PDF is to data what a hamburger is to a cow, in reply to a blog by Peter SF, Scholarly HTML.

2 minute read

Bioclipse beta5: really the last one now

Bioclipse beta 5 was just released by Ola, and the team had some bad days over an problem that happened after a merge of an important branch regarding the managers we are using to allow scripting of Bioclipse.

1 minute read

Open Data: license, rights, aggregation, clean interfaces?

A recent post by Cameron on his visit last week with Nico, Peter and Jim, discussed Open Data licensing. This lead to an interesting discussion on these matters, and questions by me on why people care so much about only public domain data (or licensed with PDDL or CC0).

5 minute read

ChemSpider and the RSC: where next?

Last Monday the CHMINF-L brought the news to me that ChemSpider was acquired by the RSC (not the press release). Twitter (my Twitter post) and FriendFeed (see this series).

2 minute read

Which feature must I install for org.eclipse.zest?

Dear lazyweb!

less than 1 minute read

PubChem-CDK

PubChem-CDK is a project that runs CDK code on the PubChem data. As we speak, a groovy script reads about 100 PubChem Compounds XML entries per second into the database. Mind you, not the SDF they distribute which uses a custom extension to overcome the limits of the real MDL SDF format.

1 minute read