| [stem-dev] Notes from today's STEM community call |
STEM Community Call August 7, 2014 On Call: Jamie, Stefan, Kun, Nereyda, Chris, Hussam, Judy Introductions: Hussam Ghunaim, graduate student at the University of Bridgeport in Connecticut, plans to use STEM in doctoral dissertation 1. STEM 2.0.2 up; next release scheduled for October 22 * Chris: Date okay, not additions/issues 2. Feature request re restricting air travel for certain compartments only * Nereyda: Will report next month when she has more specific 3. Possible use of the standards-based Systems Biology Markup Language (SBML) for predictive biological modeling * Chris: Has successfully tried one of the tools available that supports SBML with SRI compartment model; still looking into features * Discussion: Possible to import SBML file into STEM model builder...or vice versa? * Chris: Export possibly easier; will attach example of what he has done this far and start discussion thread 4. Use of Levenberg-Marquardt algorithm * Chris: Still exploring, will report 5. Comments on paper on foodborne disease published in PLoS Computational Biology * Kun: Reader raised issue whether it is safe to assume that food is consumed where purchased * Kun: Explained plan to explore further, including possible use of information from supermarket loyalty programs * Jamie: Having reader comments on published paper is a rewarding experience 6. Bugs * Stefan: All, please post any bugs on Bugzilla * Two “bugs” currently posted are actually feature requests * TO DO: Jamie and/or Stefan will respond to those two bugs 7. Items from participants *Kun: Has received positive response from Journal of Food Control on paper requesting revisions, specifically more details so readers can replicate methodology; will work on this next week and resubmit * Stefan: Still working on issue re checkout * Hussam: Finding wiki documentation on STEM hard to follow; some screens outdated ** Jamie: Email pages to stem-dev ** Stefan: If trying to write a disease model, try to use model builder ** Jamie: Go to You Tube video on model builder, download automated example on Nelder-Mead NEXT CALL: Thursday, September 4, at 9 am Pacific time |