8 October 2014

Attendance: Lee, Tom, Bill, Kwaku (yay!), Wren, Eddie, Noah, Tim, Karthik, Nic, Mike (scribe)

 

  • FLY was down due to power outages
  • Pucks – Shooters have been added, discussion of possibly using pixel data for proximity detection
  • Introductions for new people, individual project discussions.
    • Wren has data from her images of pollen tubes!
    • Tim implemented a decision tree in the Bladder Cancer dataset.
    • Bill has been using the UMASS computing cluster, can we use it?
  • Kwaku – Evolution and ecology in software engineering. Learning how diversity occurs. Embedded systems. May collaborate with Karthik?
  • Homology – How much of the population exhibits similarity structurally.
    • Background
      • Only takes structure and sequence into account, not function.
      • Comes out of ULTRA in hopes of finding structurally similar individuals
      • Plush replaced ULTRA
    • Only doing crossover on the same parts of a program
    • Want to measure how homology occurs/changes over time.
    • Tom has been testing out using edit distance to measure homology (Levenshtein) only using instructions.
    • Can we measure homology properly without executing the programs?
      • We want to measure fitness and homology, some changes benefits may not benefit until further generations
    • Should epigenetic markers influence homology? Probably.
      • Could look at the push programs rather than the plush genome.
      • Genomes are more important to look at.
      • Tom want to start without epigenetic markers for simplicity’s sake.
      • Can we use tags to assist us?
      • Padding is used to normalize.
    • Uncle Bob – SOSIES Paper code transformations, discuss next time.
    • Databases – To implement in Push, we need to figure out the root parent issue or an alternative representation to make Ancestry linear so we can find clades.
      • Find a way to eliminate duplicates?
      • Using ancestry change crossover parameters.

Link to Uncle Bob Blog Post

 

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