Run Workflows inside Bioclipse

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Bioclipse Project
Maintainer:Ola
Plugins path:net.bioclipse.taverna,net.bioclipse.knime,,net.bioclipse.bpel
Status:experimental
Wiki page last updated:2010-01-29
Repo URL:http://github.com/olas/bioclipse.taverna

Introduction

This project aims at providing execution of workflows from inside Bioclipse. Design will probably be done in respecive workflow engine's designer.

Workflow engines

The engines we will start with are:

Implementation

  • Set up T2 as an application server [DONE], see http://ws1.bmc.uu.se:8080/taverna-server-0.2.1/home.html)
  • Call the T2 app server from Java code [DONE] (proof-of-concept)
  • Create plugins for Bioclipse [Started]
  • Integrate Taverna datatypes with Bioclipse (right-click a sequence in Navigator, execute workflow X)
  • Run and execute T2 workflows locally
  • Visualize T2 workflows in a Bioclipse editor (use Dot or Zest)
  • Improve data type integration
  • and so on...

Prototype

Taverna600.png

Sample screenshot from the prototype showing a Taverna workflow inside a TavernaEditor.

Responsible

Ola Spjuth, --Ola 11:58, 25 January 2008 (CET)