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[stem-dev] Notes from the STEM Community Call today

STEM Community Call June 4, 2015

On call: Jamie, Kun, Matthias, Zhiyuan Song, Judy


Next call: Thursday, July 9, 2015



1. First call merging Ebola Modeling calls into the STEM Community calls, following the downturn in the epidemic

  • Introducing Zhiyuan Song, at Stanford, has worked with Kun on Ebola
  • Time of the STEM call will remain as (9 am Pacific) for the next call on July 9, 2015
  • Kun to invite Kamesh to join next month’s call 


2. Release status updates: Jamie

·         Version 2.0.4 scheduled for June 5 will be rescheduled

o   Stefan and Jamie to confirm new target date next week

·         Matt Davis will return August 3, do fixes, work on STEM

o   Milestone 1 for Version 3 set for October 21

o   Progress with Luna (Eclipse 4.x) and Java 8 and build process

§  Bug occurs with the model builder; can change the nature of the object

§  Current version of STEM uses Java 6, Eclipse 3; Eclipse 3 and Java 8 are not compatible


3. BfR ideas and suggestions: Matthias (see also item 8)

  • Trouble running the salmonella model; can’t see edges
    • Chris (who developed the model) and Jamie will talk (nothing in model has changed )
  • Bug 465838: see item 6 below
  • Matthias: Recent interest among other governmental agencies in modeling trade networks
  • Matthias: Goal is to create model repositories for use in crisis situations



  • Work hopefully to begin in August 

[Restricting air travel for certain compartments; New plug in to measure poverty; Plug in for roads in Africa; Batch to control sequencer; Log automated experiments (?); Modify sequencer to get automatic experiments to run batch]


5. Java 8 compatibility/support and Eclipse 4.x (Luna): TOP PRIORITY   See item 2.      


6.  Bugs

·         465981. Dengue model, Kamesh’s bug. Problem modifying value of one parameter, re-initializing scenario; problem with STEM or scenario? Problem with logger when running STEM headless?

o   Stefan working on this

·          465838. Graph editor, posted by Matthias. “Save graph as” and “save graph” don’t work. Migration history doesn’t show.

o   Jamie to confer with Chris on this; might be modulating the migration rate or something in file


7. Updates  

  • Jamie: Almaden team’s work on food safety; will share with Matthias offline


8. Items from participants

  • Matthias. Long term strategic question re requests from other agencies on time discrete transportation events: Is it possible to model  100K events with STEM? Data is available.
    • Jamie: Will talk with Chris; perhaps could create a graph if most nodes (farm/destination) are same; could determine by looking at existing data
    • Matthias: Merge STEM with mime-based tool? Repeat IBM/BfR week in Berlin?
  • Matthias. Long term strategic question re usability, possibility of creating a web-based system, opportunities with other European agencies on a web-based interface
    • Jamie: Great potential, but non-trivial to create
  • Zhiyuan. Working to combine ebola data from multiple databases, multiple countries, for analysis, use with different models, e.g., for transmission rate, re-introduction
    • Jamie: Now possible with STEM





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