07/30/2012: Microbes Call
Attendees: Mike, Jason, Gavin, Ben, Brian, Bill, Dylan, Matt, John-Marc, Aaron, Chris, Pavel, Aaron

Meeting notes
  1. Updates
    1. Trees: Mike
      1. ER finalized
      2. Bruce is working on adding to CDM, no eta on completion, hopefully by build meeting
        1. Fangfang has been talking to Bruce
        2. Bruce was on a two week vacation, back now
        3. Chris will email Ross & Bruce to find out what the eta is
          1. Chris uses document store to hold data structures
          2. Migrates to CDM when it’s ready
          3. Allows more rapid development, avoids “I can’t do anything until my data is in the CDM problem”
      3. Mike is working on data loaders and services
        1. Number of services that just take input from the user and modify data - rerooting, trimming, basic tree tools as KBase services
      4. Plants have cleared everything
    2. Phenotype: Gavin
      1. Pulling data and formating data for reconcilliation services
      2. 99% of data has been collected from Adam Duestchbauer
        1. remaining data delayed by arkin lab move
      3. data quality and data checks being written.
        1. Gavin has 3hrs to finish before Arkin servers go down
      4. Chris: special phenotype call like get_entities call
      5. Chris will write service against his document store method for the biochemistry
        1. Chris, Scott, Paul
    3. Biochemistry database
      1. loaded into cdm, but out of date
      2. getting rid of hash uuids replacing with kbase ids
      3. expanded to plants, might not go in this week
      4. Chris will send out schema
      5. compound locations defined by model, not a property of the compound
      6. FBA is done, gapfilling is done,
      7. type “tutorial” in IRIS
      8. need to consolidate hypothesis generation
  2. August Build
    1. Who’s coming
      1. Not John-Marc, Bruce?
      2. Paul and Scott
    2. Manifest
    3. Punch List
      1. On “KBaseTeam/Microbes/Feb 2013”
  3. Future - the second 18months
  4. Other Items
    1. Tools for FBA, for BESC
      1. Link for FBA Services tutorial?
      2. Demo movies on dropbox