Training course program

Dates: The BioinfoGRID Initial training course is open to everyone from Wednesday 08 March 2006 (09:00) to Friday 10 March 2006 (15.30).  Friday afternoon is reserved for BioinfoGRID members.
Location: INFN Sezione di Bari
Chair: Luciano Milanesi

Wednesday 08 March 2006

Day 1 (09:00 to 19:00) 

  
09:00  Welcome (15 min)     Giorgio Maggi (INFN Bari)
 
09:15  BIOINFOGRID: Bioinformatics Grid Application for life science [pdf 2370KB]
15 min  Luciano Milanesi (CNR-ITB) 

09:30  Grids and heterogeneity in bioinformatics [pdf 338KB]
15 min  Martin Senger (DKFZ)
 
09:45  Web services for bioinformatics applications [pdf 1112KB]
15 min  Peter Ernst (DKFZ)
 
10:00  Introduction to EGEE [pdf 6381KB]
1hr       Roberto Barbera (University of Catania and INFN) 
The Enabling Grids for E-sciencE (EGEE) project is funded by the European Commission. It is developing an international, production quality, grid infrastructure. This talk gives a brief introduction to grid computing. It then gives an overview of the EGEE project summarising its activities and status; its operations infrastructure and its applications communities. 
 
11:00 Coffee break 

11:15  The GILDA t-Infrastructure [pdf 5593KB]
30 min  Roberto Barbera (University of Catania and INFN)
"t-Infrastructure" is specialised e-Infrastructure adapted to and provided for training and education. The GILDA grid runs a combination of both LCG2 and gLite middleware. 
 
11:45  Overview of the gLite middleware [pdf 1285KB]
30 min  David Fergusson (NeSC) 

12:15  Authorisation and Authentication in gLite [pdf 501KB]
30 min  Diego Scardaci (INFN)
Certificates, Proxies, VOMS and MyProxy
 
12:45 Lunch break 

14:30  The gLIte Information System [pdf 1860KB]
40 min  Giuseppe La Rocca, Diego Scardaci (INFN)
lcg-infosites, lcg-info, R-GMA
 
15:10  Architecture of the gLite Workload Management System [pdf 1550KB]
1h        Giuseppe La Rocca (INFN)
Services, JDL, DGAS, Special jobs (MPI, workflows)
 
16:10 Coffee break 

16:30  Practicals on gLite (2h30 min)     GILDA Tutors  (INFN)
Installation of the User Interface [pdf 1798KB]
Exercises on Authentication and Authorization [pdf 206KB]
Exercises on the use of the Information System [pdf 1860KB]
Exercises on the WMS  [pdf 885KB]

Thursday 09 March 2006

Day 2 (09:00 to 19:00)   

09:00  Architecture of the gLite Data Management System [pdf 530KB]
45 min  Salvatore Scifo (INFN)
Generalities, LFC, FiReMan, FTS/FPS
 
09:45  Access to Databases through Grid: the AMGA Metadata Catalog [pdf 1213KB]
45 min  Salvatore Scifo (INFN)
Architecture, functionalities, and use cases
 
10:30  Access to Databases through Grid: OGSA-DAI [pdf 1522KB]
45 min  David Fergusson (NeSC)
Architecture, functionalities, and use cases
 
11:15 Coffee break
 
11:30  Access to Databases through Grid: G-DSE
45 min  Giuliano Taffoni (INAF)
Architecture, functionalities, and use cases
 
12:15  Portals and workflows: GENIUS and TRIANA [pdf 15854KB]
45 min  Alberto Falzone (NICE)
 
13:00  Portals and workflows: Taverna [pdf 5565KB]
45 min  Paolo Romano (ISTI-Genova)
 
13:45 Lunch break
 
15:00  Portals and workflows: GRB [pdf 7662KB]
45 min  Massimo Cafaro (SPACI)
Functionalities and advanced use cases
 
15:45 Coffee break 

16:15  Practicals on gLite [pdf 563KB]
2h45 min  GILDA Tutors (INFN)
Exercises on the gLite Data Management System [pdf 1125KB]
Exercises on gLite Special Jobs
Use of the GENIUS portal  

Friday 10 March 2006

Day 3 (09:00-18:00)

   
09:00  Bioinformatics applications and tools on the GRID EGEE infrastructure (2h15 min)    
Functional Analogue Gene Finder [pdf 424KB]
35 min  Giacinto Donvito (INFN/EGEE)
The WISDOM application [pdf1 4446KB, pdf2 9991KB]
35 min  David Fergusson
The Patsearch algorithm [pdf 1236KB]
30 min  Vito Flavio Licciulli 
Deployment of bioinformatics tools and services [pdf 2054KB]
35 min  Jean Salzemann
 
11:15 Coffee break 

11:30  Data access issues in a distributed federated system [pdf 1656KB]
30 min  G.Scioscia, G. Pappadà e V. Quinto (IBM)  
 
12:00  Grid monitoring [pdf 1575KB]
30 min  Enrico Fattibene (INFN)
GridICE, SFT, etc. 
 
12:30  Ethical issues [pdf 355KB]
30 min  David Fergusson (NeSC) 
 
13:00 lunch

14:15 P-GRADE portal [pdf 3588KB]
60 min practical  Gergely Sipos (MTA SZTAKI)

15:15 Coffee break

15:30  BIOINFOGRID Project organizational aspects (Restricted) (2h)