Team:Berkeley Software/NinaNotebook

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Revision as of 23:25, 3 June 2009 by NinaRevko (Talk | contribs)

Nina 2 June 2009

Today is the second day of iGEM. Yesterday I spent time looking at java tutorials.

New Tasks Given are to look at tutorials for wiki that will be working or not -- media wiki embedded html for complicated stuff keep clean, so no need to clean up later think of a plug-in 1 wiki entry per week

Nina 3 June 2009

My 1st official entry

Nina Revko - on UCB campus


I am a member of computational team, majoring in bioengineering in fall 2009.

On Monday my team met, and everyone got acquainted with each other. We are still missing one member Lesie, who will join the team on Monday. After meeting with members of computational team, everyone went for a lab safety training and lunch social, where we met other members and leaders including the participants of the wet lab. Instructors were surprised with the size of this year's iGEM team.

Even though, we started working only on Monday, today is Wednesday, and everyone is overwhelmed with tasks and information. I think that we will adjust very soon and will produce effective results.

We got acquainted with Clotho, NetBeans, some Clotho code and CVS already.

This week short-term goals:

  1. search for bugs in Clotho
  2. edit Notebook
  3. modify .html help files
  • MainToolBar
  • MySQLlogin


Longer short-term goals:

  1. proof-read and become familiar with the rough draft of paper for assembly of biological parts(implementation of dynamic programming - hash tables in Java - and determining the minimum cost for assembly)
  2. together with Bing, meet with Chris Anderson and Jenn and learn how the robot works in the wet lab + their protocols (.csr file)

Long term goal for the 1st part of iGEM:

Robot/Automation project (brief structure):
  • select parts (basic and compound)
    • do it through Part Manager - 1 click
    • put in Algorithm Manager
  • run Assembly Algorithm w/Algorithm Manager Plug-in => record wells and physical locations of the each part
  • create 2 protocols (.csr)
  1. human
  2. robot
  • both protocols should take into account actions that user should perform (grab samples from freezer with appropriate bar code - talk to wet lab members); the way dilution will be performed; the way plates will be managed before the complete assembly takes place (Plate Manager)


--NinaRevko 23:05, 3 June 2009 (UTC)

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