ABI CellML Meeting Minutes, 15th September 2010
Present:
Last week's action items
1) Mike will put up the presentation on metadata, amended based on comments received in the meeting.
- Done.
2) Tommy will publicise the tracker item [about URL shortening] and encourage people to give feedback.
- Tommy has publicised the tracker item, but so far there has been no discussion.
- Randall: go ahead with the plan discussed at last week's meeting.
3) Randall will send this correspondence [about the CellML converter from Dan Beard] on to Andrew.
- Done.
4) Andrew to look at whether toplevel piecewise models work properly with IDA.
- Piecewise equations require a fix, and Andrew is going to try a method to get them working. There was a discussion about how to get piecewise working under IDA.
This week's agenda
1) CellML API - update
Progress:
- Andrew: has spent most of the time trying to get integrator to restart, in order to provide IDA support for piecewise equations to support reset rules.
- Justin: discovered that a test for the API is not 64bit clean.
2) OpenCell development
Progress:
- Justin: OpenCell is ready to be bundled up and tested.
- Justin: fixed a few small bugs that were causing a test to fail (graph trace issues when switching between models).
Planning:
- Dougal: can do Windows and Linux testing for OpenCell.
3) CellML core specs - update
Progress:
- Andrew: working on the ModML reaction generator, which is very close to being finished. The next step is to make and test some models.
Discussion:
- Randall: the Beard group have a database of reactants and reaction rates, which may be useful. They also have a database of MATLAB snippets.
4) Metadata specifications (general, citations, graphing, simulation, other) - update
- No update.
5) Repository contributions - update
- No update.
6) PMR2 development - update
Progress:
- Tommy: continuing to refactor, exposures and workspaces now fully separated. Working on Plone menus.
- Tommy: has begun the paper submission process.
- Andrew: BMC Bioinformatics said that we should include (?). This has now been included, and will be re-submitted this evening. The new complex-provenance diagram is now included.
7) Time permitting: Updates or additional items from volunteering attendees
- Andre: summer studentships are now organised. There are a number of studentships (FieldML etc.) which did not get students.