• Eugene
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• Kepler
• Data Model

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Kepler helps scientists design models and analyses across a broad range of scientific and engineering disciplines.Kepler Project Website This summer we introduced Kepler into synthetic biology by building a set of new Kepler actors for assembly automation and Clotho connection.

Components

In Kepler, a workflow is built from a collection of process steps that run under the control of a supervisor system.
Those separate steps are called "actors", they are represented as square icons but inside them are codes to define what to run in a step. A step can be an input/output operation, a computational function, or even another workflow. These actors are supervised by the "director", which keep track of when to run each actor.

Some Kepler actors

To start designing Kepler workflow, the online manuals provide details instruction: Kepler Documentation

Clotho Connection

One of the key challenge for biology tool development is how to effectively share and cooperate. This year we strengthen the possibility of connection between multiple software. In particular, the Clotho platform from last year and Kepler can connect and send data through the remore interface with Java RMI. This RMI connection will guarantee Clotho and Kepler to talk to any Java software that import the same interface. File:BerkeleySoftwareKeplerGetString: GetString actor This is the configuration of the Kepler actor GetString. This actor can read data as String from any tools in Clotho that provide a public data access method. In the image, we want to read data from the tool AlgorithmManager, if there are multiple data fields, we can further specify what data we want with the other parameters.

(List of RMI Clotho method)
(screenshot of Clotho - Kepler with arrow)