1. MIK 2.1 DBNS - introduction to WS-PGRADE, 2013
Course Overview
Lectures
Introduction to e-Science
Computing on e-infrastructures
Practice
Introduction to WS-PGRADE
Exercises
Wrap-up
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

2. Introduction to WS-PGRADE
MIK 2.1 Databases and Networksystems
Guest lecture “e-science”
Silvia Delgado Olabarriaga, Mahdi Jaghoori
Bioinformatics Laboratory, KEBB

3. MIK 2.1 DBNS - introduction to WS-PGRADE, 2013
Recap: Workflows
Workflow description
Workflow management system
step1
step2
step3
step4
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

4. WS-PGRADE / gUse architecture
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

5. MIK 2.1 DBNS - introduction to WS-PGRADE, 2013
Characteristics
Web interface
Automates data passing between workflow components as files
Automates execution of remote computations
Can execute in various distributed computing infrastructures (cluster, grid, cloud)
Academic software
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

6. MIK 2.1 DBNS - introduction to WS-PGRADE, 2013
Overview: Concepts
Workflows
Abstract (Graph)
Concrete
Jobs
Executable
Type
Ports
Input
Output
Files
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

7. MIK 2.1 DBNS - introduction to WS-PGRADE, 2013
Overview: Actions
Create workflow
Configure workflow
Submit workflow
Details
Get outputs
Pause/Resume workflow
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

8. Login and select Student pages
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

9. MIK 2.1 DBNS - introduction to WS-PGRADE, 2013
Workflow creation
Create abstract workflow (graph)
Create concrete workflow (from graph)
Configure concrete workflow (jobs executable, type and input data)
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

10. Create abstract workflow
Workflow->Graph
Graph Editor
Add jobs
Add ports
Edit port type
Edit names
Add description
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

11. Create concrete workflow
Workflow->Create concrete
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

12. Configure concrete workflow
Workflow->Concrete
Configure
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

13. Configure concrete workflow Job description
Click on job
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

14. Configure concrete workflow: Job executable (on local server)
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

15. Configure concrete workflow: Job ports
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

16. Save concrete workflow configuration
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

17. MIK 2.1 DBNS - introduction to WS-PGRADE, 2013
Submit workflow
Workflow->Concrete
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

18. Monitor workflow execution
Workflow->Concrete
Details
Details (again)
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

19. Monitor workflow execution (Running)
Workflow->Concrete
Details
Details (again)
View Running
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

20. Monitor workflow execution
Workflow->Concrete
Details
Details (again)
View Finished
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

21. MIK 2.1 DBNS - introduction to WS-PGRADE, 2013
Get workflow results
Workflow->Concrete
Details
Details (again)
View Finished
Download file output
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

22. MIK 2.1 DBNS - introduction to WS-PGRADE, 2013
Duplicate workflow
Workflow->Create Concrete
Button: different workflow
Name for new workflow
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

23. Configure concrete workflow: Job executable (on grid)
Workflow->Concrete
Configure
Click on Job
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013

24. MIK 2.1 DBNS - introduction to WS-PGRADE, 2013
Exercises
Get familiar with the WS-PGrade platform available at the AMC
Learn how to develop simple workflows
very simple programs (Java)
Connect programs
Pass files around
Run programs and on the Dutch Grid
Instructions on
MIK 2.1 DBNS - introduction to WS-PGRADE, 2013