Team:Berkeley Software/ThienNotebook/Notes

From 2009.igem.org

Revision as of 00:45, 9 June 2009 by Thien.nguyen (Talk | contribs)

(diff) ← Older revision | Latest revision (diff) | Newer revision → (diff)

This is my iGEM work journal. I will update this a few times per week

Week 1

Tasks for this week:
. Make this wiki, add introduction and ~~wacky~~ nice pictures!
. Learn about Clotho, fix help files and find bugs
. Plan our main projects and short-term tasks
. Adding the oligos design tool as a Clotho plug in
. Play with Kepler, try creating simple workflow to read from our database and draw some diagram
. Have fun working

June 2nd 2009

Second day of iGEM! We have a short tutorial for Clotho and coding styles, then we start working on our subprojects.

June 3rd 2009

We went over the data model of Clotho today. I worked on the oligos design tool, as I already wrote a small tool to make construction file for the iGEM application, and Christ Anderson also wrote his oligos design tool. After discussing with Christ & Doug, we decided to leave the oligos plug in for now, and I concentrate on getting familiar with Kepler and finish other tasks of this week.

June 4th 2009

I play with Kepler without success, the database connection actor somehow didn't work for me. I'm still confused about the director & actor relationship in Kepler. I'm also fixing the help file on Clotho Part Navigator, and try to find bugs.

June 5th 2009

We decided to still add oligos design tool as a plug-in to Clotho, so I will learn how to make a Clotho plug-in. Next week I will learn and "take over" the Clotho's Part Manager from Nade. For today I will read about Clotho plug-in and connect Christ's oligo design tool. This tool already provides output as multiple construction files, assembly file for the robot and other files, so it can stand on it own. Ideally, it really improve as a plug-in for Clotho if we can connect the tool to the database connection, and use the tool's output to add new parts to the database. However, what we concern now is the way Clotho handle temporary information and features, since the current datamodel may not fully support what we need, and the implementation of the tool is not very modular also. At least Clotho will only launch the tool like Notepad plug-in and the tool run separately. --Thien.nguyen 19:26, 5 June 2009 (UTC)

Week 2

Task for this week
. Learn and manage Cotho's Part Manager, including improving the helper file
. Finish making the oligos design plugin
. Continue learning Kepler --Thien.nguyen 00:45, 9 June 2009 (UTC)