5th EGEE User Forum

Europe/Stockholm
Uppsala University

Uppsala University

Evangelos Floros (GRNET)
Description
The 5th EGEE User Forum will be held in collaboration with EGI and NDGF in Uppsala, Sweden, April 12-16, 2010. With the establishment of sustainable European and National e-Infrastructures this event will be the ideal place for European e-Infrastructure users to meet, share experiences, and shape the future of European e-Infrastructures. The meeting is hosted by SNIC, UPPMAX and PDC.
Book of Contributions
Demos and Posters
EGEE Featured Contributions
    • 09:00 12:00
      EGI-InSPIRE: (Closed) VIII (CERN)

      VIII

      CERN

      Sweden
      • 09:00
        EGI Collaboration Board 3h
        Speaker: Steven Newhouse
        Slides
    • 09:00 12:00
      NDGF meeting Room IX

      Room IX

      Uppsala University

    • 09:30 12:00
      NA2 Face to Face (Closed) IV

      IV

      Uppsala University

      paper
    • 13:00 15:00
      Opening Plenary Auditorium

      Auditorium

      Uppsala University

      • 13:15
        Welcome from EGEE Project Director 15m
        Speaker: Bob Jones (CERN)
        Slides
      • 13:30
        Welcome from Local Organisation 15m
        Speaker: Mr Erwin Laure (PDC-Centre of High Performance Computing, KTH)
        Slides
      • 13:45
        Presentation of Uppsala University and history of the building 15m
        Speaker: Mr Mikael Norrby (Uppsala University)
      • 14:00
        e-Infrastructures as enablers of the "fifth freedom" 15m
        Even if the scientific community is often not aware of it, the free movement of knowledge (also known as the "fifth freedom") is anchored in the Lisbon Treaty. Its Article 179 reads "The Union shall have the objective of strengthening its scientific and technological bases by achieving a European research area in which researchers, scientific knowledge and technology circulate freely […]". The talk will reflect on the role of e-Infrastructures in enabling the "fifth freedom" and devise some of the challenges ahead.
        Speaker: Mr Enric Mitjana (European Commission)
        Slides
      • 14:15
        The Swedish e-Science Research Centre 45m
        As a result of a strategic research initiative by the Swedish government in the area of e-Science, a consortium of four universities have been able to substantially increase their research activities in the area. The Swedish e-science Research Centre (SeRC) is formed by the universities in Stockholm and Linköping -- KTH, Linköping University (LiU), Stockholm University (SU) and Karolinska Institutet (KI) -- around the two largest high-performance computing (HPC) centres in Sweden: PDC at KTH and NSC at LiU. Research at SeRC is focused on the collaboration between tool makers and tool users, and brings together a core of nationally leading IT research teams with expertise in e-Science method development and leading scientists in selected application areas. SeRC will provide a platform for increased collaboration between applied and method-oriented groups, with the aim to constitute a visionary e-Science node with a national scope and strong international ties. Work will evolve along three lines: (i) Formation of e-Science Communities that connect application groups with relevant core e-Science groups and computer experts at PDC and NSC, (ii) Research in core e-Science methods such as distributed resources, database technology, numerical analysis, visualization and interaction, mathematical modelling and parallel algorithms, focusing on problems critical for several e-Science communities, (iii) Closer collaboration between PDC and NSC, and a substantial increase in advanced support staff, which will turn the two centres into comprehensive e-Science enablers. The general structure and scope of SeRC will be presented including examples of collaborative work in some of its communities.
        Speaker: Prof. Juni Palmgren (Stockholm University and Karolinska Institutet)
        Slides
    • 15:00 15:30
      Coffee break 30m
    • 15:30 17:00
      EEF meeting (Closed) VIII

      VIII

      Uppsala University

      Meeting of the European E-infrastructure Forum

      Phone conference:
      Dial-in numbers: +41227676000 (English, Main)
      Access codes: 0150552 (Leader)
      0160525 (Participant)
      Leader site: https://audioconf.cern.ch/call/0150552
      Participant site: https://audioconf.cern.ch/call/0160525

      Eef Website
      • 15:30
        Introduction 10m
        Speaker: Bob Jones (CERN)
      • 15:40
        Review of EEF draft report 30m
        Paper
      • 16:10
        Next steps 10m
      • 16:20
        Preparations for the ESFRI session tomorrow (Tuesday) 20m
      • 16:40
        AOB 20m
    • 15:30 17:00
      Infrastructure Tools and Services Room IX

      Room IX

      Uppsala University

      This session, on Infrastructure Tools and Services, covers a cross section of the emerging tools that are being created to make life easier for the VOs, as well as for individual users. The first talk, "A solution to distribute software packages at Grid sites using Squid" describes an alternative approach to making VO applications available at grid sites. The second talk, "Application Domain Accounting for EGI", focuses on the 'missing' functionality of the EGEE grid accounting systems: VO application-level accounting. The talk on "Site Status Board" gives an overview of the tool, how it is used by the LHC VOs, and how it could benefit other VOs. The penultimate talk, "Visual GRID Activity Monitoring in the Dashboard Framework", describes a Google Earth based monitoring application which visualizes grid activity and provides a very appealing tool for educational and public relations purposes. The final talk in this session, "Workflow repository, user specific monitor, and vulnerability analyzer in SEE-GRID", introduces some high-level services, which extend the gLite-based SEE-GRID infrastructure in order to ease several tasks of end-users and VO application developers.

      Slides
      • 15:30
        A solution to distribute software packages at Grid sites using Squid 15m
        In the current model of Grid computing the software needed by virtual organizations (VO) is stored at the sites in a shared area mounted on NFS and jobs running on the worker nodes access the necessary applications through NFS protocol. An alternative model, based on Squid, is proposed in this article. With this approach, the software packages are pulled from the central VO repository to the sites using http protocol. Squid also takes care of managing the transfers of packages from a central repository at the site to the worker nodes, and optimising network throughput over the LAN.
        Speaker: Dr Elisa Lanciotti (PIC (Spain))
        Slides
      • 15:45
        Application Domain Accounting for EGI 15m
        Accounting is a powerful tool for users and VOs to obtain information on grid resources usage. Currently, they can access the accounting portal to display executed jobs. However, grid users and VOs prompt further improvements to enhance the EGEE accounting system and foster cooperative endeavors. One of the most requested features is application-level accounting. Together with COMPCHEM VO the initial requirements are being analyzed. It has suggested to gather extra information on the most executed programs, on the amount of retrieved results (per user/program) and on the used resources.
        Speaker: Dr Javier Lopez (CESGA)
        Slides
      • 16:03
        Site Status Board: WLCG monitoring from the experiment perspective 15m
        Now that the LHC has started, the experiments require a high standard of reliability and performance on their computing activities. Monitoring these activities is not a trivial task mainly due to two reasons: first of all, asserting the proper behavior of a site depends heavily on the software model of each experiment; secondly, the number of sites taking part in WLCG has increased drastically compared to previous HEP experiments.
        Speaker: Jacobo Tarragón Cros (CERN)
        Slides
      • 16:20
        Visual GRID Activity Monitoring in the Dashboard Framework 15m
        It is sometimes hard to conceptualise the GRID and visualise its activity. But having a graphical representation of its workings and movements, we can more easily surpass these problems; coupling this with a system that provides accurate measurements of such activities, we obtain a powerful monitoring system that is visually appealing, intuitive to use and of great practical worth. Our solution is supported on two, interconnected systems: the Google Earth Dashboard monitor provides the high-level, graphical view of the Grid while more detailed information is displayed by Siteview.
        Speaker: Ms Julia Andreeva (CERN)
        Slides
      • 16:38
        Workflow repository, user specific monitor, and vulnerability analyzer in SEE-GRID 15m
        This talk introduces some high-level services, which extend the gLite-based SEE-GRID infrastructure in order to ease several tasks of end-users, application developers, and grid operators. The Common Workflow Repository Extension (CWRE), and the User/application Specific Grid Infrastructure Monitoring Extension (USGIME) of P-GRADE portal can provide efficient tools for user and application developer communities. With the Grid Site Software Vulnerability Analyzer (GSSVA) the grid operators can inspect the vulnerability/security level of the grid infrastructure with minimized intrusion.
        Speaker: Mr Robert Lovas (MTA SZTAKI)
        Slides
    • 15:30 17:00
      Scientific Gateways and Portals Auditorium

      Auditorium

      Uppsala University

      The task to take advantage of grids can be a challenge for scientists with limited computational expertise. For this group of users, there is a need for more user-friendly points of interaction. Portals and Gateways provide an access-point which abstracts away technical details, and allows users to focus on their research; every scientist does not have to be a computer expert.

      Grid portals have the advantage that there is no need for the user to install software locally, which significantly simplifies maintenance and sustainability. In fact, the user sometimes does not even know that the underlying resources are grids. For grids to have the largest impact, it is important to make resources available as widely as possible. Scientific gateways and portals have the potential to build more and larger user communities, open for the use of grids in more disciplines, and foster collaborative environments.

      Portals can provide means to interact with, for example, grid middlewares and/or Web services, or be devoted to a scientific domain. In this session, we will hear about two general-purpose portal engines and two domain-oriented portals. In common, they have that they hide the sometimes complex technologies, delivers access and visually oriented means to interact with data and computational resources, and have extensible architecture.

      • 15:30
        An advanced web portal for accessing Grid resources with Virtual Collaboration features. 20m
        The Virtual Control Room (VCR) is an open source web portal that puts together a rich collaborative environment with the simplified access to the gLite Grid resources. The latest version of the VCR is based on the Gridsphere 3 and Google Web Toolkit (GWT). It uses the DORII Java Common Library for accessing Grid resources, integrates DORII Workflow Management System, presents a much improved Application Manager, introduces tags for user-application mapping and support for robot certificates.
        Speakers: Mr George Kourousias (Sincrotrone Trieste S.C.p.A.), Mr Milan Prica (Sincrotrone Trieste S.C.p.A.), Dr Roberto Pugliese (Sincrotrone Trieste S.C.p.A.)
        Slides
      • 15:50
        P-GRADE grid portal family 20m
        Science gateways are important tools to provide user friendly access to various grid systems for various user communities. The most popular way of creating science gateways is the establishment of grid portals through which users can access grid facilities without any grid installation. In many cases science gateway portals completely hide the underlying grid infrastructure and some of them provide high level programming concepts like workflow programming. The P-GRADE portal family belongs to this class of science gateways. It has three main members: P-GRADE, NGS P-GRADE and WS-PGRADE.
        Speaker: Peter Kacsuk (SZTAKI)
        Slides
      • 16:10
        SOMA2 – Open Source Gateway to Molecular Modelling Workflows 20m
        SOMA2 gateway is a WWW-browser operated molecular modeling workflow environment developed and deployed by CSC. The SOMA2 environment allows users to control and combine scientific applications available in the computing system into unique application workflows, which are automatically executed. SOMA2 offers a flexible framework for integrating and executing molecular modeling applications, including molecular data exchange. SOMA2 source code is distributed under the GPL license.
        Speaker: Dr Tapani Kinnunen (CSC - IT Center for Science Ltd.)
        Slides
      • 16:30
        A Scientific Gateway for Distributed Mining of Biomedical Image Data utilizing Web Services 20m
        Recent advances in biomedical applications like DNA sequencing, microarray data generation, high-throughput, gene-function studies, medical imaging, and electronic medical records, have resulted in the automatic generation of new and vast data repositories. Mining and managing such biomedical data is a complex procedure that requires several processing phases. Especially in the case of biomedical images, proper preprocessing, (e.g., image enhancement, color processing), feature extraction and classification are required.
        Speaker: Mr Charalampos Doukas (University of the Aegean)
        Slides
    • 15:30 17:00
      Security Room IV

      Room IV

      Uppsala University

      An overview of the latest advances in security and several related mechanisms on Grid infrastructures will be given during the session. Developments on monitoring and administration of security related operations as well as user tools to better manage digital certificates and encryption of sensitive information will be presented. Several presentations during the poster session also cover and provide insight on new tools on credential management and proxy delegation.

      Slides
      • 15:30
        An Active Security Infrastructure for Grids 20m
        To date, grid security activities have largely focused on prevention mechanisms, i.e., authorization,authentication, and secure communications. Here we present an Active Security Infrastructure (ASI) for grids, the design of which focuses on the areas of detection (e.g. intrusion detection), and reaction, i.e., taking action to prevent, or to recover from, a security incident. The infrastructure is composed of a distributed monitoring and control layer and an analysis layer. Communication between layers is via a grid information system.
        Speaker: Dr Stuart Kenny (TCD)
        Slides
      • 15:50
        Encrypted Data Storage 20m
        Biomedical researchers are required to encrypt sensistive patient data before use/storage on Grid Data Management services. The services described enable this operation.
        Speaker: John White White (Helsinki Institute of Physics HIP)
        Slides
      • 16:10
        Sanctorum: a solution for safe management of digital certificates and passwords in a farm 20m
        Sanctorum is a python tool created to aid sitemanagers to safely manage digital certificates and passwords for hosts in a farm. Motivation for the tool: when releasing a new host certificate, the Italian Certification Authority recommends the site to maintain two backup copies of the private key in a safe place not network reachable. This makes it quite difficult to both respect the CA rule and to efficiently manage the site, especially large ones. The proposed solution makes it possible to manage digital certificates in a comfortable and error free manner while still respecting CA recommendations.
        Speaker: Dr Stefano Dal Pra (INFN)
        Slides
      • 16:30
        Improving Grid User's Privacy with gLite Pseudonymity Service 20m
        The Grid computing model provides Grid users a way to use resources that are not usually owned by their parent organizations. The use of Grid resources entails a balance between the resource owner's need to oversee and account for the resource usage and the user's privacy requirements. From the user's point of view, complete anonymity is desirable, but not possible due to requirements like traceability without user intervention. The solution we propose is the concept of a lesser degree of anonymity, pseudonymity: the use of traceable pseudonyms as user identifiers.
        Speaker: Mr Henri Mikkonen (Helsinki Institute of Physics HIP)
        Slides
    • 15:30 17:00
      User Support and Services Room X

      Room X

      Uppsala University

      • 15:30
        User Support for Distributed Computing Infrastructures in Europe 15m
        In a worldwide distributed computing infrastructure such as EGEE (Enabling Grids for E-sciencE) one of the challenging tasks is to build and maintain a reliable user support infrastructure. During the last years the GGUS (Global Grid User Support) system has been developed as EGEE’s answer to that challenge. GGUS is designed as a centrally coordinated distributed infrastructure that integrates existing tools instead of trying to replace them. The next challenge will be to adapt the user support infrastructure to the new operations model on which the EGI/NGI infrastructure will be based.
        Speaker: Dr Torsten Antoni (Karlsruhe Institute of Technology)
        Slides
      • 15:45
        Supporting diverse local virtual organisations 15m
        Within ScotGrid-Glasgow, primarily an ATLAS Tier-2 grid site, we are involved in supporting a number of local virtual organisations (VO)'s, including Electrical Engineers, Solid State Physicists (SSP) and Optics all with very specific non-high energy physics requirements (HEP). An account of the main issues and achievements that resulted from working with other groups at our site who sought direct access to a batch system rather than a grid site will be presented. This includes trialling various submission mechanisms and middleware components to achieve the goals of each of the specific VO's
        Speaker: Dr Douglas Mcnab (University of Glasgow)
        Slides
      • 16:00
        Lessons learnt from the EGEE Application Porting Support activity 15m
        In its third phase, the EGEE project flagged application porting as a critical service for the successful adoption of grid solutions by new users and new communities and includes “Application Porting Support” among its generic user support activities. The goal of the EGEE Application Porting Support group is to aid developers in effectively porting Virtual Organizations’ (VO) applications to the Grid. The presentation gives an overview of the key activities of this support service, its evolution during the EGEE project, and the lessons learnt by the provision of this service.
        Speaker: Gergely Sipos (MTA SZTAKI)
        Slides
      • 16:15
        Latest achievements of the MTA SZTAKI Grid Application Support Centre 15m
        The Grid Application Porting Support Centre (GASUC) of MTA SZTAKI has been established in 2007 to support potential users of grids getting their applications to distributed infrastructures. The support team is the leader of the EGEE Application Porting Support Group since 2008 and has been ported about 15 applications since then to various production VOs of the EGEE grid. This presentation will give an overview of the latest applications and tools that the support centre has worked with, developed and operated.
        Speaker: Gergely Sipos (MTA SZTAKI)
        Slides
      • 16:30
        Training in EGEE - creation of a sustainable user service 15m
        EGEE-III Networking Activity 3 (NA3) has the responsibility of coordinating and delivering user training and induction. The activity aims to train a wide variety of users, both those within the EGEE consortium and those from outside the project who make use of the EGEE Grid infrastructure. The presentation will present the evolution of training activities in the EGEE series of projects, provide a summary of its current services and highlight activities that make gLite-related training in Europe a sustainable service
        Speaker: Robin McConnell (NeSC)
        Slides
    • 17:00 19:00
      Demo Session 1, Welcome Drink Aula

      Aula

      Uppsala University

      The User Forum demonstration session traditionally provides the opportunity to mature research work and scientific activities, exposing highly interactive and visually appealing characteristics, to come and present their latest achievements. This year 20 demonstrations have been selected to be presented in two demo slots. For this purpose, the demonstrations are split in two groups each one scheduled for a different day. The first group of 10 demonstrations will be on display during the first slot on Monday afternoon, in parallel with the welcome cocktail, whereas the second group will be presented on Wednesday afternoon. Both sessions will be run in parallel with the poster sessions on display in the same area in the venue.

      The demonstrations have been split into two logical groups based on their focus. Thus, on Monday the session will host demonstrations with more scientific focus; i.e. activities who will present scientific results achieved using a large scale Distributed Computing Infrastructures. On Wednesday, the interest will shift to more technical demonstrations, with the scheduled presentations focusing on advanced tools and technologies that facilitate the end-user/DCI interaction as well as on international projects and collaborations, which strive to extend and expand the current horizons of DCI infrastructure to novel technologies and paradigms. Some of these activities have been demonstrated in previous events, thus the attendees will have the opportunity to check upon their progress and be informed about latest results. Others, will be demonstrated for the first time.

      Finally as with previous events, the best demonstrations will be selected form the EGEE External Advisory Committee and the event attendees. The best demos will be announced and awarded during the event’s closing plenary on Thursday.

      • 17:00
        e-NMR: Computational NMR Infrastructure in life science and system biology 10m
        In order to enable the life science community to make full use of the EGEE computing resources we have developed an e-infrastructure named ‘eNMR’ (EU 7th FP, Contract no. 213010). eNMR deploys and integrates biomolecular NMR applications into a platform, so that EU scientists can easily access it via a standard browser interface and use it at every step of their research process. The sequence of available web-portals covers all aspects of bio-NMR: data acquisition, processing, analysis, protein/DNA/RNA structure calculation, molecular docking, validation, deposition etc.
        Speakers: Marco Verlato (Istituto Nazionale di Fisica Nucleare Padua (INFN), Italy), Victor Jaravine (Goethe-University, Germany)
      • 17:10
        DrugScreener-G: Towards Grid-enabled Large-Scale Virtual Screening Coming into Handy 10m
        DrugScreener-G (DSG) is an intuitive and easy-to-use grid-enabled in silico screening tool, aiming to help scientists in drug discovery including biologists and biochemists to conduct a large-scale deployment of virtual screening process on the Grid. With the help of DSG, scientists can easily have access to the PDB database, download and view the 3D structure of target proteins of interest, launch and manage millions of protein-ligand docking simulations on the Grid. To facilitate the analysis of docking results, visualization tools like Jmol and Chimera have been integrated into DSG as well.
        Speaker: Dr Soonwook Hwang (KISTI)
      • 17:20
        NeuroLOG: a federated environment for neurosciences supporting multi-centric studies 10m
        The NeuroLOG project develops a distributed environment dedicated to the support of collaborative and multi-centric studies in neurosciences. The NeuroLOG environment leverages grid technologies to deploy a highly secure, large scale data federation and to deliver high throughput neuroimages analysis. It is interfaced to the gLite middleware and takes advantage of the EGEE grid. It integrates in existing site-specific neuro-informatics environments. NeuroLOG clients, deployed on user desktops, provide neurosciences services through a coordinated federation of site servers and grid services.
        Speaker: Mr Alban Gaignard (CNRS/I3S)
      • 17:30
        Grid Web Portal with software plug-ins to chemical software 10m
        New users, especially those accustomed to Graphic User Interfaces (GUI), often face difficulties during the adoption of grid computing for the research. The main source of issues is related to command line interfaces which are hard to adopt by non-experts. To avoid users’ disappointment a new web based interface has been proposed. In contrast to existing web-based tools the portal developed facilitates not only job management but primarily can serve as a work environment for chemists. Here, we present the current status of the portal development including several plug-ins to first principles chemistry packages.
        Speakers: Mr Daniel Harezlak (ACC Cyfronet AGH), Dr Mariusz Sterzel (ACC Cyfronet AGH)
      • 17:40
        Impact of the synthetic seismogram archive for the CMT determination 10m
        The aim of this demo is to show the performance increase provided by an indexed synthetic seismograms archive. It is also an opportunity to identify partners wishing to distribute and consolidate this archive.
        Speaker: David Weissenbach (CNRS / IPGP)
      • 17:50
        Porting Scientific Application to the EDGeS Service Grid/Desktop Grid Platform 10m
        The EDGeS project connects the g-Lite based EGEE grid to several BOINC and XtremWeb based Desktop Grid system. The EDGeS infrastructure successfully extends EGEE with volunteer and institutional desktop resources to be utilized by master worker or parameter sweep applications. The project has successfully ported several EGEE applications to the combined platform, including the WISDOM meta-middleware for molecular docking simulations, the ISDEP plasma fusion application, or the VisIVO server tool for the visualization of astrophysical data.
        Speaker: Mr Robert Lovas (SZTAKI)
      • 18:00
        Earthquake Disaster Mitigation on EUAsiaGrid 10m
        Although earthquakes are not predictable at the moment, with the aid of accurate seismic wave propagation analysis, we could simulate the potential hazards at all distances from possible fault sources by understanding the seismic wave velocity structure of the earth and the rupture process during large earthquakes. With the integration ofa strong ground-motion sensor network, an earthquake data center and seismic wave propagation analysis over gLite e-Infrastructure, we could have much better knowledge on the impact and vulnerability of potential earthquake hazards.
        Speaker: Mr Eric Yen (Academia Sinica Grid Computing)
      • 18:10
        Cancer Sentinel project: a grid network for distributed medical data management on Cancer. 10m
        The Sentinel project involves several medical actors related to cancer: screening structures, medical laboratories and both regional and national public health authorities. The project builds upon grid technologies to create a federation of medical data sources related to cancer. The main purpose of the project is to enable secured medical data exchanges between cancer screening structures and cancer analysis (pathology) laboratories. The architecture and tools used to deploy such a network are also relevant to distributed medical images diagnosis, global health and epidemiology.
        Speaker: Ms Lydia MAIGNE (LPC CNRS/IN2P3)
      • 18:20
        neuGRID - A Grid-Brained Infrastructure to Understand and Defeat Brain Diseases - 3rd Neuroscientific Data Challenge 10m
        Launched early 2008 by the EC Research Infrastructure Unit, the neuGRID project has established a distributed e-Infrastructure interconnecting major clinical research centres in Europe, supplying neuroscientists with the most advanced ICT to defeat Alzheimer's Disease (AD) and neurodegenerative pathologies in general. Based on EGEE gLite, neuGRID has developed a harmonized and powerful environment to design, test and assess new disease markers.
        Speaker: Mr David MANSET (maatG)
      • 18:30
        Grid-enabled virtual screening service against the epidemiological disease 10m
        GAP Virtual Screening Service (GVSS), a large-scale in-silico drug virtual screening service, provides a system to speed-up the searching process among all conformations of a compound. Moreover, GVSS is a generic drug discovery framework over gLite by which users can upload their compounds and targets to do grid docking, compare the significance, and verify results by in vitro experiment afterwards. GVSS has proved to provide intensive computing power and effective data management over gLite infrastructure on neglected and emerging diseases, such as Avian Influenza and Dengue Fever.
        Speaker: Mr HsinYen Chen (Academia Sinica Grid Computing)
    • 17:00 19:00
      Poster session Aula

      Aula

      Uppsala University

      The User Forum poster session has always been on of the most lively and vibrant parts of the event. We expect this year to be no exception. 40 posters have been accepted and will be presented during the two relevant sessions, on Monday and Wednesday afternoon, in parallel with the demonstration sessions. This year the poster session offers a mixture of scientific and technical presentations on a wide variety of subjects: Grid security, distributed programming development tools, infrastructure operations and recent progress of DCI exploitation by traditional as well as nascent user communities. The attendees will have the opportunity to closely interact with the poster presenters, get informed about their recent activities, exchange ideas and potentially establish new collaborations. They will also have the chance to vote for the best poster in display. The winner will be announced during the User Forum closing plenary on Thursday morning.

      • 17:00
        Eliminating and preventing Grid Security Vulnerabilities to reduce security risk 3m Aula

        Aula

        Uppsala University

        The EGEE Grid Security Vulnerability Group was formed "to incrementally make the Grid more secure and thus provide better availability and sustainability of the deployed infrastructure". The aim is to eliminate vulnerabilities from the Grid and prevent new ones from being introduced, thus reducing the risk of security incidents. This poster alerts users and developers to both the activities of the this group and problems that may be caused by vulnerabilities. It is also intended to inform what they should do to avoid introducing vulnerabilities and report any their find.
        Speaker: Dr Linda Ann Cornwall (Particle Physics-Rutherford Appleton Laboratory-STFC - Science &)
      • 17:03
        jGridstart: request, obtain, and install grid user certificates in a friendly way 3m Aula

        Aula

        Uppsala University

        The use of X.509 certificates gives flexibility in authentication and authorisation on the grid. The associated key is usually stored on the user's computer. While this is good practice from a security standpoint, managing keys and certificates is far from trivial. jGridstart attempts to bridge this gap by providing a friendly user-interface to guide the user in requesting, renewing, and installing user certificates. It is currently in use at the DutchGrid certification authority.
        Speaker: Willem van Engen (Nikhef)
        Poster
      • 17:06
        Checking Grid Certificate Profile Compliance 3m Aula

        Aula

        Uppsala University

        Digital certificates are used to secure international computation and data storage grids for e-Science projects in EGEE. The International Grid Trust Federation has defined a set of guidelines for digital certificates used for grid authentication. We have designed and implemented a program and test suites to check X.509 certificates against profiles and policies relevant for use on the Grid to assist implementers and users of PKI to reach appropriate trust decisions.
        Speaker: Dr Stuart Kenny (TCD)
      • 17:09
        Modelling aerosol pollution over Athens, Greece using grid technology 3m Aula

        Aula

        Uppsala University

        This scientific work aims at studying aerosol pollution over Athens, through an on-going modeling effort using grid technology. Aerosol predictions by the eulerian model CAMx, will be obtained for different emission scenarios. Focus is given on the role of conventional anthropogenic emissions versus natural emissions (sea-salt and Aeolian dust) on aerosol pollution. Predictions will be evaluated against aerosol measurements by the National Ministry of the Environment.
        Speaker: Dr Eleni Athanasopoulou (NKUA, GREECE)
      • 17:12
        gLite Porting to the Play Station 3 using ETICS for electronic High Throughput Screening (eHiTS) 3m Aula

        Aula

        Uppsala University

        Since 2003 TCD has invested heavily in middleware porting, constantly engaging with the middlware development groups of the EU DataGrid (EDG), LHC computing Grid (LCG) and EGEE projects. In 2008, TCD ported gLite worker node to Yellow Dog Linux 6 on the Play Station 3, without data management. The node, built in ETICS, and tested in a production environment with gLite WMS job submissions were successfully submitted to it. The decrease in computational performance of porting the eHiTS software to the Grid is too expensive, so porting the Grid to other architectures such as the PS3 is important.
        Speaker: Mr John Walsh (Trinity College Dublin)
      • 17:18
        The HELIO project. 3m Aula

        Aula

        Uppsala University

        HELIO is a project of the 7th Framework Program that aims at creating a collaborative environment in Heliophysics. As it includes different services that can be computationally intensive and involve large, dispersed volumes of data, HELIO will use a Grid-based system for processing and storage for its most intensive analysis. The architecture must balance conflicting requirements: to have a powerful, yet easy to use, instrument, to comply with the policies of the back-ends, and to be flexible in orchestrating, locating and co-locating the services.
        Speaker: Dr Gabriele Pierantoni (Trinity College Dublin)
      • 17:21
        Migration of the MAGIC data transfers to a Grid infrastructure 3m Aula

        Aula

        Uppsala University

        The MAGIC collaboration is moving from a computing model based on local computer farms to a Grid based model, including the migration of all the services of the official data center. Here we present the recent progress in the adoption of the Grid infrastructure in the MAGIC data center, which relates to the data transfer from the observation site.
        Speaker: Roger Firpo Curcoll (Port d'Informació Científica)
      • 17:24
        Running Bag-of-Tasks Applications in EGEE with MaWo 3m Aula

        Aula

        Uppsala University

        MaWo is a distributed computing framework which implements a well-known master-worker pattern. It provides a programming interface as well as easy-to-use tools for running Bag-of-Tasks applications across heterogeneous computing resources. MaWo allows the user to seamlessly utilize all available resources including local workstations, clusters and grids among which EGEE is a primary target. The framework significantly reduces the time and effort needed to port an application to grid.
        Speaker: Dr Oleg Sukhoroslov (Centre for Grid Technologies and Distributed Computing, ISA RAS)
      • 17:27
        The APEL CPU Usage Accounting Infrastructure for NGI Grids 3m Aula

        Aula

        Uppsala University

        In order to implement and deploy a scalable and flexible distributed CPU usage accounting infrastructure for the NGI Grids, the accounting records transport mechanism of the APEL (Accounting Processor for Event Logs) tool is modified and extended to integrate with ActiveMQ message broker network. The new APEL CPU usage accounting infrastructure supports a robust accounting capability at an NGI level and flexible across VOs accounting records queries.
        Speakers: Mrs Cristina Del Cano Novales (e-Science Centre, Science and Technology Facilities Council, United Kingdom), Mr Gilles Mathieu (e-Science Centre, Science and Technology Facilities Council, United Kingdom), Mr John Casson (e-Science Centre, Science and Technology Facilities Council, United Kingdom), Dr John Gordon (e-Science Centre, Science and Technology Facilities Council, United Kingdom), Dr Ming Jiang (e-Science Centre, Science and Technology Facilities Council, United Kingdom), Mr William Rogers (e-Science Centre, Science and Technology Facilities Council, United Kingdom)
      • 17:30
        Integration of Nagios plug-in into a data model to improve the Grid stability from the user point of view 3m Aula

        Aula

        Uppsala University

        In this work, we propose a new approach to publish and consume monitoring information about Grid sites within a gLite based infrastructure. Starting from a set of tests that are crucial for a Grid site or for a Virtual Organization, we created a data model to represent them in the standard gLite information system. Through the Nagios tool, we have periodically performed sanity checks publishing the results concerning resource monitoring or resource discovery. Preliminary tests have shown the effective benefits provided by this approach in term of successful jobs.
        Speaker: Dr Silvio Pardi (INFN - Naples Unit)
      • 17:33
        Data awareness in gqsub 3m Aula

        Aula

        Uppsala University

        gqsub is a user (command line) interface for submitting and monitoring Grid jobs that conforms to the IEEE standard for qsub (and friends). Recent development has focused around data and data awareness; both in terms of data local to the submission machine, and data elsewhere in a Storage Element.
        Speaker: Dr Stuart Purdie (University of Glasgow)
      • 17:36
        Experiences with a lightweight GRID infrastructure using AFS 3m Aula

        Aula

        Uppsala University

        The Andrews File System (AFS) with certificate-based authentication can be used to provide a system of input and output sandboxes which is simpler and easier to use than the usual tarball. We describe how such a system was set up at Manchester, the experiences of various different users, and the implications for design of Tier3 facilities.
        Speaker: Gillian Sinclair (University of Manchester)
      • 17:39
        Supporting 60 e-Science applications from Europe and Latin-America: Best practices and analysis extracted from the EELA-2 project 3m Aula

        Aula

        Uppsala University

        Investments to promote e-infrastructures within new scientific communities in several regions of the world have been attracting new research groups interested in porting their applications on the Grid. Such an expansion across many institutions/countries facing different maturity levels of IT infrastructures, network connections and e-science awareness represents new challenges to support a diversity of users/applications. This work aims at presenting a complete picture of all EELA-2 applications as well as to share some best practices and methodologies used to support them.
        Speakers: Leandro Ciuffo (Italian National Institute of Nuclear Physics (INFN)), Riccardo Bruno (Italian National Institute of Nuclear Physics (INFN)), Roberto Barbera (Italian National Institute of Nuclear Physics (INFN) and University of Catania)
      • 17:42
        Job management in gLite 3m Aula

        Aula

        Uppsala University

        The gLite WMS has been designed and implemented to provide a dependable, robust and reliable service for efficient and transparent distribution and management of end-user requests to high-end resources shared across a production quality Grid. The WMS comes with a fully-fledged set of added-value features that hide to end users the complexity of such a heterogeneous and ever growing infrastructure and enable, thanks to a flexible, service oriented and general architecture, applications coming from largely different domains
        Speaker: Dr Marco Cecchi (INFN)
      • 17:45
        Harnessing Heterogeneous Computing Resources for Solving Hard Computational Problems 3m Aula

        Aula

        Uppsala University

        The talk presents the BNB-Grid tool aimed at solving hard combinatorial, discrete and global optimization problems in a distributed heterogeneous computing environment. The BNB-Grid can run applications across different service and desktop grid platforms as well as individual workstations and clusters. The BNB-Grid efficiently copes with difficulties arising in such systems: the software diversity, unreliability of nodes and problems with batch (queuing) system. The talk discusses the implementation details and computational results for two challenging problems.
        Speaker: Dr Mikhail Posypkin (ISA RAS)
      • 17:48
        Gustav : a lightweight approach to CPU accounting 3m Aula

        Aula

        Uppsala University

        Gustav is a CPU usage accounting tool developed by INFN, COMETA and the KISTI institute. Gustav collects accounting records from resources and publishes them to a centralised relational database, that can be queried through a web interface. Gustav is characterised by a lightweight architecture, that makes its usage ideal for small sized infrastructures. However, interoperability with more powerful tools, like DGAS or APEL, is accomplished by the adoption of standard format for accounting records.
        Speaker: Dr Emidio Giorgio (Unknown)
      • 17:51
        An integrated monitoring system for Grid Data Centers 3m Aula

        Aula

        Uppsala University

        We present a monitoring system developed for the Data Centers used for the SCoPE and ATLAS projects in Napoli, Italy. The system is based on a portlet container which gives an integrated view of the Data Center, and allows a graphical-based, hiearchically organized navigation for all the equipments, from the racks to the active components. The system allows monitoring of the whole infrastructure (UPS, cooling, electrical power consumption at single socket level), but also of the network (Gigabit, 10 Gigabit, Infiniband, Fibre Channel) and, of course, of storage and server nodes.
        Speaker: Prof. Guido Russo (Universita' Federico II & INFN, Napoli)
      • 17:54
        MEG - MyProxy Enabled GSISSHD 3m Aula

        Aula

        Uppsala University

        MEG allows users to logon to a grid-resource using any SSH-enabled client, so long as they have uploaded a credential to a MyProxy server. MEG accepts the username and password to the credential from the SSH client and retrieves the proxy on behalf of the user, and the uses the proxy to determine if the login can proceed. Resource providers benefit too, as only grid-based authentication mechanisms are needed, so a UI box can be implemented without adding an additional layer of user management.
        Speaker: Mr Kevin Haines (STFC)
      • 17:57
        Using the EELA-2 grid Infrastructure to Perform HeModynamics Computer Simulations: The HeMoLab Experience 3m Aula

        Aula

        Uppsala University

        The main goal of the HeMoLab project is the development of computational models used in the simulation of the Human Cardiovascular System, performed by a general purpose numerical solver that apply distributed computing techniques through the use of the MPI paradigm. This paper describes the main steps of the porting process of SolverGP to gLite environment, covers the main characteristics of gLite, grid tools that have been used in the gridification process, and examples of performance results of computer simulation that were obtained from the application already ported to Grid of the EELA-2.
        Speaker: Paulo G. P. Ziemer (LNCC - National Lab for Scientific Computing)
      • 18:00
        grid-CICADA – Efficient Explorer of Conformational Space of Biomolecular Systems 3m Aula

        Aula

        Uppsala University

        Knowledge of conformational space is essential in the assessment of dynamical behavior of biomolecules, which is important, for example, in drug design and folding studies. Unfortunately, systematic exploration of conformational space is impossible due to its high complexity. To circumvent this problem, we have developed the program CICADA that tries to rationalize the search in such a space. In this work, we will demonstrate the utilization of a newversion of CICADA in the grid environment during the study of selected middle size biomolecules.
        Speaker: Mr Jakub Stepan (National Centre for Biochemical Research, Masaryk University, Kotlarska 2, CZ-61137 Brno, Czech Republic)
      • 18:03
        Stellar energy flux modeling under SYNTSPEC application 3m Aula

        Aula

        Uppsala University

        We present the stellar energy flux modeling tool under the SYNTSPEC application. SYNTSPEC is the gridified tool for stellar spectra analysis. It is an example of a data- and compute-intensive application running on the testbed of the EU BalticGrid-II Project (http://www.balticgrid.org), which brings new quality to the research in astrophysics. The multi job application is run within the Gridcom system – the user friendly interface that allows a common (virtual) work of the physically spread scientific group.
        Speakers: Prof. Gražina Tautvaišienė (ITPA VU), Mr Šarūnas Mikolaitis (ITPA VU)
      • 18:06
        Performance evaluation of the Estimated Response Time strategy: tools, methods and an experiment 3m Aula

        Aula

        Uppsala University

        An extensive body of research focuses on economic and intelligent scheduling models. Conversely, the gLite matchmaking engine adopts an agnostic approach for estimating the waiting time of incoming jobs, derived from the Copernican principle: "this job is not special". An open question is the evaluation of this minimalist strategy. This work reports on the creation of the software tools required for this evaluation, the methodology and criteria, and presents preliminary results using the Grid Observatory logs of the Information System (IS) and PBS scheduler of GRIF/LAL.
        Speaker: Mr Alain Cady (LAL)
      • 18:09
        Visualizing the dynamics of e-science social networks 3m Aula

        Aula

        Uppsala University

        Computational grids provide new natural examples of large-scale complex networks emerging from collective behavior. An interesting question is thus whether these networks exhibit properties similar to those of other social networks (SN), or original ones, which would be the specific signature of e-science. As a first step towards answering these questions, we build a scalable interactive visual exploration tool targeted at the spatiotemporal structure of data-access and data-sharing. The primary goal is to help computer science researchers getting intuition about the dynamics of the system.
        Speaker: Prof. Cecile Germain-Renaud (LRI)
      • 18:12
        Trading Computing Resources across gLite and XtreemOS Platforms 3m Aula

        Aula

        Uppsala University

        The objective of this work is to present a system that facilitates the commercialization of Grid resources through a Virtual Marketplace of computational resources, where a seller is capable of listing the Grid resources, and buyer can request/bid dynamically for required computing resources for their applications. This model exploits the benefits of Grid computing, especially the inter-operability and scalability of Grid platforms. Interoperability is achieved by using the OGF SAGA standard on two Grid platforms: XtreemOS, a Linux-based Grid OS, and gLite, a Grid middleware.
        Speaker: Dr Pushpinder Chouhan (STFC)
      • 18:15
        Monitoring CREAM Jobs in RTM via L&B 3m Aula

        Aula

        Uppsala University

        The Real Time Monitor (RTM) is a high-level monitoring tool which aggregates information on grid jobs and presents it in a suitable form. The success of this tool depends on the accuracy of information it is able to receive from lower layers. However, withthe recent increase of the number of jobs submitted directly to Computing Elements (CE) the fraction of jobs seen by RTM decreases. gLite Logging and Bookkeeping service (L&B), with its recent extension to CREAM jobs, provides the necessary level of abstraction and a glue between different job flavours to allow high-level tools to see full range of grid jobs.
        Speaker: Mr Aleš Křenek (CESNET)
      • 18:18
        A new middleware component for job monitoring in interactive mode: The SCoPE Experience 3m Aula

        Aula

        Uppsala University

        This work aims to extend the standard gLite middleware with a new functionality that enables the final users to interact with their submitted grid-jobs, for monitoring purposes. The new service is composed by a worker nodes Proxy server, with web-services interface VOMS compliant, easy to deploy and not invasive to respect the standard gLite solution. Through the Proxy, a generic user can connect, from the user interface, to the Worker Node that is taken his job. The tool has been implemented on the SCoPE infrastructure, to support the e-science community of the University of Naples Federico II
        Speaker: Dr Silvio Pardi (INFN - Naples Unit)
      • 18:21
        ASC: an Adaptive Scheduling Controller 3m Aula

        Aula

        Uppsala University

        The deployment, management and TCO of large computing environments always involve huge investments. These systems, once in production, have to meet the needs of users belonging to large and heterogeneous communities: only an efficient and effective use of these systems can repay the investment made. In this context, we report the experience made to design, implement and validate an adaptive scheduling system able to reconfigure itself when a lack in utilization efficiency occurs.
        Speaker: Dr Giovanni Battista Barone (University of Naples Federico II)
      • 18:24
        Programming gLite without an UI - a JavaGAT adaptor for gLite 3m Aula

        Aula

        Uppsala University

        Programming in the EGEE Grid with gLite currently requires a large toolchain of software, which is installed on UI machines. It is often difficult, if not impossible, to install the full gLite software stack on development machines or on deployment machines, e.g. for web portals. We present a generic adapter for programming gLite which is independent from the gLite software stack and from UI machines. It can be used on any machine providing the Java Runtime Environment. It provides an API compatible with JavaGAT, the standard for Grid programming.
        Speaker: Mr Thomas Zangerl (KTH)
      • 18:27
        GILDA training infrastructure: present successes and future triumphs 3m Aula

        Aula

        Uppsala University

        GILDA is a very successful initiative, led by INFN, aiming to provide a special production-quality Grid infrastructrure (t-Infrastructure) for higher education, training and dissemination purposes. Since its earlier phases, EGEE adopted GILDA as its t-Infrastructure, providing many scientific and humanistic communities with a fully fledged virtual laboratory where to “learn and try”. GILDA has officially been adopted as the default t-Infrastructure by other projects such as EELA and EELA-2, EPIKH,EUAsiaGrid, EUChinaGrid, EUMEDGRID/EUMEDGRID-Support, SAGrid, the UNESCO/HP Brain Gain Initiative.
        Speaker: Valeria Ardizzone (Istituto Nazionale di Fisica Nucleare sez. catania)
      • 18:30
        A Grid-Enabled Problem Solving Environment for QTL Analysis in R 3m Aula

        Aula

        Uppsala University

        There exist a large number of applications in multidisciplinary research environments that require efficient, seamless, and easy-to-use infrastructures to address computationally intensive problems. In this work we present an approach to build Grid-enabled problem solving environments (PSE), that allow end-users to operate within familiar settings and provide transparent access to computational Grid resources.
        Speaker: Mr Salman Zubair Toor (Department of Information Technology, Uppsala University, Box 337, SE-751 05, Uppsala, Sweden)
      • 18:33
        Earth Science and Astrophysics Applications in Armenia: Present and Perspectives 3m Aula

        Aula

        Uppsala University

        The Institute for Informatics and Automation Problems of the National Academy of Sciences of the Republic of Armenia operates, supports and manages the national Grid Infrastructure and Academic Scientific Network of Armenia, which provides all core services to the users and consists of 7 Grid sites located in Yerevan and Ashtarak cities (424 cores). Armenia actively engaged in different international Grid (EU FP7 SEE GRID SCI, ISTC A-1606, ISTC A-1451) and connectivity (EU FP7 BSI) Projects, which make possible to deploy infrastructures and environments in the earth science and astrophysics.
        Speaker: Dr Hrachya Astsatryan (IIAP NAS RA)
      • 18:36
        Data Mining and Integration of Environmental Applications 3m Aula

        Aula

        Uppsala University

        In this paper we presents the data mining and integration of environmental applications in EU IST project ADMIRE. It briefly presents the project ADMIRE and data mining of spatio-temporal data in general. The application, originally targeting flood simulation and prediction is now being extended into the broader context of environmental studies. We describe several interesting scenarios, in which data mining and integration of distributed environmental data can improve our knowledge of the relations between various hydro-meteorological variables.
        Speaker: Ladislav Hluchy (Institute of Informatics, Slovakia)
      • 18:39
        Development plans of the EGEE Operations Portal and dashboard towards and EGI/NGI infrastructure 3m Aula

        Aula

        Uppsala University

        The operations portal of EGEE is undergoing a tremendous back-end evolution to wrap-up the 5 years experience gained on daily grid operational needs about procedures and tools developed for and made available to the different EGEE communities.This evolution is crucial to meet the changes to cope with the EGI structural needs and with the NGIs requirements for the regionalisation of the tools where applicable.
        Speaker: Helene Cordier (CNRS/IN2P3)
      • 18:42
        Grid-CSIC project: porting astrophysic applications to Grid 3m Aula

        Aula

        Uppsala University

        Two important problems related to astrophysics applications are high computational cost and limited storage. The Grid-CSIC Project promotes the use of Grid infrastructure on the research institutes of Spain. The Institute of Astrophysics of Andalusia (IAA-CSIC) joined this project in order to provide scientific application support in the astrophysics area. Several applications have been implemented by the infrastructure work team.
        Speaker: Mr JOSE RAMON RODON ORTIZ (IAA. Instituto de Astrofísica de Andalucía)
      • 18:45
        Grid preprocessing application for Environment monitoring in Moldova 3m Aula

        Aula

        Uppsala University

        The aim of the EnviMon application is to organize data acquisition and processing for Environment state monitoring. A nation-wide distributed set of sensors are polled from a central station placed at the main site of the State Hydrometeo Service of Moldova (SHMS). The application provides data collection, filtering, storage and processing in order to produce synthetic reports and input that can be used as structured tables for database or input for geoinformation systems maps. .
        Speaker: Dr Veaceslav Sidorenco (RENAM)
      • 18:48
        Configuration and optimization for a gLite grid computing farm. 3m Aula

        Aula

        Uppsala University

        We will illustrate the optimization work performed on a mid-sized gLite grid-computing farm, testing various solutions, to improve the services offered to both grid and local users. Particular attention was devoted to the storage infrastructure and its configuration trying to improve the overall farm performance, reliability and to minimize the manpower required for its management. Improvements were also pursued by optimizing the configuration of the batch system. Experiences from both LHC users and non LHC ones will be reported.
        Speaker: Giacinto Donvito (INFN-Bari)
        Poster
      • 18:51
        Maintaining Corpus Download Facilities with Changing Technology 3m Aula

        Aula

        Uppsala University

        Introduction of federated login using Shibboleth for a linguistic data archive created a problem by making existing local tools for downloading data-sets stop working. To address this problem the use certificate based authentication in combination with a SLCS service was setup. The application domain demanded that special attention was paid to shielding the user from the complexity of working with certificates and making the SLCS handshake as easy as possible. Parallel access to the archive using both Shibboleth and client certificates required careful configuration.
        Speaker: Mr Dieter van Uytvanck (Max Planck Institute for Psycholinguistics)
      • 18:54
        Earth Science applications of the ES Virtual Research Community 3m Aula

        Aula

        Uppsala University

        Earth Science is an all-embracing term for sciences related to the planet earth covering a large user community from academy, industry and organizations. To provide a scientific basis for addressing societal issues is more and more computing resources are neededboth for real and remote time applications. In the framework of the European Grid Initiative, EGI, the ES VRC gathers the partners of 9 Virtual Organizations located in 23 European or associated countries and is linked to EELA2, EUAsia and African partners. Overview of applications and tools are presented.
        Speaker: Monique Petitdidier (IPSL/Latmos)
      • 18:57
        Workflow support for multinode tests of Grid components 3m Aula

        Aula

        Uppsala University

        Desktop Grid solutions —such as Internet-based distributed or volunteer computing infrastructures— usually collect non-reliable and vulnerable resources from the donors (desktop PC owners) for some selected, grand challenge projects. In this paper we discuss one of the key issues, the software build, test, and validation procedures for such (and similar) heterogeneous environments, based on the workflow based description of multinode tests and ETICS-2 services.
        Speaker: Robert Lovas (MTA SZTAKI)
    • 09:00 10:30
      Technical Plenary Auditorium

      Auditorium

      Uppsala University

      • 09:00
        The computational challenges in Life Sciences 45m
        Life sciences is one of few areas of research where the complexity of the problems grows faster than our ability to deal with them from a computational point of view. Massive genomic projects have yield detail sequence information on all the species of human interest and we are now deriving meta-genomic information of complex ecosystems, including for example the human digestive system. In a near future we might face the pangenomic scenario, where sequence information of all the human beings might be accessible. In parallel, to the genomic revolution, system biology projects are putting all this sequence data in the proper cellular context, building entire networks aimed to explain the chemical complexity of life. The third axis structural genomic projects are increasing the structural knowledge on biological machines opening then the possibility to modulate on their actions and by extension on the entire cellular functioning. During my talk I will try to draw the exciting, but scaring scenario of the research in biology, trying to outline the main topics were help from computers is needed. I will provide examples of how current computer platforms can help to derive biologically-relevant information and I will emphasize the complexity of the problem from the computational point of view.
        Speaker: Prof. Modesto Orozco (Director Joint Research Program on Computational Biology. Institute of Reserach in Biomedicine and Barcelona Supercomputing Center.)
      • 09:45
        Addressing Complexity in Emerging Cyber-Ecosystems - Exploring the Role of Autonomics in E-Science 45m
        Significant strategic investments are quickly realizing a pervasive computational cyberinfrastructure that integrates large-scale computing, high-speed networks, massive data archives, instruments, observatories, experiments, and embedded sensors and actuators, and are catalyzing new thinking, paradigms and practices in computational science and engineering – those that are collaborative and information/data-driven. However the ability of scientists to realize this potential is being severely hampered by the complexity of the applications and infrastructure, which together present unprecedented development, configuration and management challenges. Autonomic computing has the potential to fundamentally address these challenges. The goal of autonomic computing is to design and engineer systems and applications that are capable of managing themselves, adapting their resources and operations to workloads and execution context, and anticipating needs, all with minimal involvement of users. In this talk I will explore the role of autonomics in computational science and engineering, both in managing systems and applications as well as in enabling new application formulations. I will then describe specific research efforts aimed at enabling autonomic scientific and engineering applications that can address the challenges of (and benefit from) pervasive cyber-ecosystems.
        Speaker: Prof. Manish Parashar (Rutgers University)
        Slides
    • 10:30 11:00
      Coffee break 30m
    • 11:00 12:30
      Bioinformatics Room X

      Room X

      Uppsala University

      Life Sciences is a very active field of research using the EGEE infrastructure. Several EGEE related projects are also exploring the use of gLite middleware for bioinformatics and healthcare. The User Forum is a wonderful opportunity to get an overview of the present adoption of grids in the Life Sciences communities through the dedicated oral sessions session but also through the posters and demos exhibition. Complementary to the "medical imaging" session, the "bioinformatics and biomedicine" session programme reflects the variety of topics currently addressed on EGEE and its related projects in the field of life sciences.

      • 11:00
        Estimating the Performance of BLAST runs on the EGEE Grid 15m
        Estimating the response time of large experiments is a key issue for achieving an efficient load balancing and minimizing the failure rate. This requires having a good knowledge of both the application and the infrastructure. This work describes a set of experiments that have conducted to the definition of a performance model that can be used to estimate the response time of the selected resources and to adapt the partition of the load to the dynamic status of the resources.
        Speaker: Dr Ignacio Blanquer-Espert (UPV)
      • 11:15
        Grid assisted structure calculation of large protein systems in solid-state NMR context 15m
        Due to the present experimental limitations of solid-state NMR (ssNMR), 3D structure calculations of proteins using these NMR spectra as a source for structural constraints are demanding in terms of computing power. The application ARIA solid-state NMR is dealing with the automated assignment and structure calculation of large protein systems in ssNMR context. We are currently adapting and evaluating that structural-biology application to grid computing within the EGEE infrastructure, and to cloud computing infrastructure using the HIPCAL and Eucalyptus systems.
        Speaker: Dr Christophe Blanchet (CNRS IBCP)
        Slides
      • 11:30
        Job submission tool: bioinformatic application porting on the gLite grid Infrastructure. 15m
        The Job Submitting Tool provides a solution for the submission of a large number of jobs to the grid in an unattended way. Indeed the tool is able to manage the grid submission, bookkeeping and resubmission of failed jobs. It also allows the monitor in real time of the status of each job using the same framework. In this work we will introduce same key new features and application that we have added to this tool. In the work several already executed challenges will be reported together with a logical description
        Speaker: Giacinto Donvito (INFN-Bari)
        Slides
      • 11:45
        A Protein Tertiary Structure Prediction Service in the ProGenGrid System 15m
        Proteins are central to all biological processes: a very important problem in proteomics is the prediction of the three-dimensional (3D) structure of proteins from their amino acid sequence, because this information can be useful for determining the protein function, given by a specific spatial conformation that the protein assumes when it reaches the active state. We have integrated a routinely expert dependent strategy, based on the homology modeling procedure, in an automatic tool that may facilitate the generation of carrier models at low resolution, exploiting the EGEE infrastructure.
        Speaker: Dr Maria Mirto (CMCC, University of Salento, Lecce)
      • 12:00
        The Nordic BioGrid project – Bioinformatics for the grid 15m
        Life sciences have undergone an immense transformation during the recent years, where advances in genomics, proteomics and other high-throughput techniques produce floods of raw data that need to be stored, analysed and interpreted in various ways. Bioinformatics is crucial by providing tools to efficiently utilize these gold mines of data in order to better understand the roles of proteins and genes and to spark ideas for new experiments.
        Speakers: Prof. Bengt Persson (IFM Bioinformatics, Linköping University, S-581 83 Linköping, Sweden; Dept of Cell and Molecular Biology, Karolinska Institutet, S-171 77 Stockholm, Sweden; National Supercomputer Centre (NSC), S-581 83 Linköping, Sweden), Joel Hedlund (IFM Bioinformatics, Linköping University, S-581 83 Linköping, Sweden)
    • 11:00 12:30
      Computational Chemistry Room IV

      Room IV

      Uppsala University

      The EGEE series of projects brought computational chemistry on a grid to a new level: from a small group of users to a second resource consumer just after High Energy Physics. Chemical applications on EGEE Grid cover a wide area ranging from quantum dynamics computations for small molecular systems through ab initio simulations up to molecular dynamics studies of huge molecular systems of biological and industrial importance.

      The User Forum is an annual EGEE conference whose unique character descends from the fact that grid users can meet together with developers. This year dedicated oral talks and accompanying posters detail not only current development on the EGEE grid of the computational chemistry domain traditional subjects. Large part of the conference session is instead devoted to the rapid evolution of computational chemistry tools to the quickly approaching EGI era. Typical examples of this are web services enabling easy use of chemical software on the Grid or implementation of new techniques enabling computation of various energy derivatives – crucial for determination of many molecular properties.

      • 11:00
        Porting of Computational Chemistry legacy applications on the EGEE Grid platform: computational aspects and visualization tools 20m
        The work carried out to implement complex computational chemistry suites of codes on distributed systems and, at the same time, to develop appropriate graphical tools for the visual rendering of the outcomes of the calculations on the production EGEE Grid infrastructure available to the COMPCHEM VO, is here presented and discussed with some examples.
        Speaker: Dr Alessandro Costantini (COMPCHEM-University of Perugia)
        Slides
      • 11:20
        Ab initio grid chemical software ports – transferring knowledge from EGEE to Polish NGI 20m
        Chemical software, especially with ab initio methods, have been developed over several years of research in the field of numerical methods in chemistry. As the research was performed by many groups of scientists this resulted in a variety of software suites. From this set the commercial packages are of particular interest among the community due to the availability of many computational methods, the fast development of new ones and better user support. To attractthe chemical community to grid computing a set of frequently used software suites have been ported to the grid.
        Speaker: Dr Mariusz Sterzel (ACC Cyfronet AGH)
      • 11:40
        A priori modeling of chemical reactions on a grid-based virtual laboratory: towards standard representations of data for molecular chemistry 20m
        We have assembled on the COMPCHEM segment of the EGEE Grid Infrastructure the core of the Grid Empowered Molecular Simulator (GEMS) queueing in a common workflow a suite of - adequately "gridified" - codes for the a priori modeling of elementary chemical processes. The communication between applications from different scientific domains is fostered by the use of common data formats. A test calculation is shown for the benchmark H + H2 reaction.
        Speaker: Dr Sergio Rampino (Università degli Studi di Perugia)
        Slides
      • 12:00
        Molecular and material science innovative applications on the grid 20m
        Speaker: Dr Stefano Cozzini (CNR-INFM Democritos and ICTP)
    • 11:00 12:30
      EGI Session Auditorium

      Auditorium

      Uppsala University

      • 11:00
        The EGI-InSPIRE Project: Community Interactions 20m Auditorium ()

        Auditorium

        The EGI-InSPIRE project has two activities focussed on interactions with the community: External Relations and User Community Coordination. This presentation will provide an overview of the dissemination and policy development tasks that form the basis of the external relations activity in EGI-InSPIRE, and the user community activity that encompasses a support team based at EGI.eu and those located within the community.
        Speaker: Steven Newhouse
        Slides
      • 11:20
        EGI-InSPIRE: Operations 20m Auditorium ()

        Auditorium

        The production grid infrastructure in EGI-INSPIRE is built from resources provided by the participating partners. These are brought together into a secure, integrated, reliable infrastructure by EGI.eu through the federated operations of independent infrastructures. This presentation will provide an overview of the operational infrastructure and the development of the operational tools used to manage it.
        Speaker: Dr Tiziana Ferrari (INFN CNAF)
        Slides
      • 11:40
        EGI-InSPIRE:Technology 20m Auditorium ()

        Auditorium

        The EGI-InSPIRE project will rely on external software providers to develop the technology that meets the needs of EGI's user and operations community. The EGI.eu staff will work to collect and prioritise requirements across the community from the virtual research communities using the infrastructure and from the operations staff deploying the technology. It is expected that the technology will evolve rapidly during the project, and the technology team will define the functional and performance requirements that need to be achieved by the software providers for their technology to be deployed into production.
        Speakers: Dr Michael Grønager (NDGF), Michael Grønager (NDGF / NORDUnet A/S)
        Slides
      • 12:00
        EGI InSPIRE HUC SA3 - Services for Heavy User Communities of DCIs 20m Auditorium

        Auditorium

        Uppsala University

        At this last User Forum of the EGEE project, it is appropriate to consider how services for “heavy users” of Distributed Computing Infrastructures will continue to be provided. The role of the European Grid Initiative (EGI) has been discussed for some time now and a specific activity regarding Service Deployment is foreseen as part of the EGI InSPIRE (“Integrated Sustainable Pan-European Infrastructure for Researchers Everywhere”) proposal. This talk explains which communities are targeted by the work that is foreseen and outlines mechanisms whereby its progress can be tracked. Moreover, it examines how the potential benefits – within individual communities, between them (e.g. common tools and services) as well as to the more general DCI community – can be achieved.
        Speaker: Dr Jamie Shiers (CERN)
        Slides
      • 12:20
        NGIs and VOs Readiness Survey 10m Auditorium

        Auditorium

        Uppsala University

        Speaker: Gabriel Zaquine (Unknown)
        Slides
    • 11:00 12:30
      Novel Architectures and Technologies Room IX

      Room IX

      Uppsala University

      Technologies such as clouds and virtualization are attracting a lot of interest in grid and e-science worlds. With respect to grid systems, they are often seen as complementary or as natural extensions, but sometimes as competitors. In this session, a number of talks will report experience in using cloud technology and services, as well as virtualization, in scientific applications. Other presentations present frameworks and tools to ease the integration of new technologies in the grid landscape. Overall, we will attempt to better understand the opportunities and potential pitfalls in adopting these technologies such that future architectures leverage this important pool knowledge acquired and shared by early adopters.

      • 11:00
        Grids and Clouds Interoperation: Development of e-Science Applications Data Manager on Grid Application Platform 20m
        The Grid Application Platform(GAP) is a middleware to reduce development efforts of e-Science implementation. The GAP development is stimulated by the systematic framework in which applications can easily well-formulated common components to build up new services and taking advantage of Grid without worrying about new technologies. Cloud technology of data management is of essential importance by its performance and resilience. HDFS is integrated into GAP for the value of a scalable, fault-tolerant distributed file system for an efficient data access services in any stage of an e-Science Apps.
        Speaker: Mr WeiLong Ueng (Academia Sinica Grid Computing)
        Slides
      • 11:20
        Managing Healthcare and Medical Information Utilizing Cloud Computing 20m
        Cloud Computing provides functionality for managing information data in a distributed, ubiquitous and pervasive manner supporting several platforms, systems and applications. This work presents the implementation of a mobile system that enables electronic healthcare data storage, update and retrieval using Cloud Computing. The mobile application is developed using Google’s Android operating system and provides management of patient health records and medical images (supporting DICOM format and JPEG2000 coding).
        Speaker: Charalampos Doukas (University of the Aegean)
        Slides
      • 11:40
        Pros and Cons of cloud adoption in the Scientific Data Infrastructures - the D4S-II case 20m
        The D4S project is going to provide as major product the gCube middleware. It is a grid-enabled service oriented middleware enabling the creation and operation of Virtual Research Environments, to serve the management and exploitation of scientific data. As part of the D4S-II project a study on the impact of cloud technology (mainly Virtualisation) and cloud capabilities (on-demand availability and scalability) on the gCube software will be performed. The study will also analyse the impact of cloud technology from a commercial point of view (market positioning, possible exploitation strategies).
        Speaker: Mr Andrea Manieri (Engineering Ingegneria Informatica S.p.A.)
        Slides
      • 12:00
        Offering GridWay users more power by means of the Amazon public cloud 20m
        We present a mechanism to easily provision public cloud resources for grid users. The extension of the underlying grid infrastructure benefits demanding situations coming from a single user, a group belonging to a Virtual Organization, or even from a institutional requirement. A set of very simple tools allows the GridWay administrator to deploy arbitrary instances and monitor how the enrolment is performed, guaranteeing the usability of the new resources to the specific target community.
        Speakers: Dr Alejandro Lorca (Universidad Complutense de Madrid), Dr Jose Luis Vazquez-Poletti (Universidad Complutense de Madrid)
        Slides
    • 12:30 14:00
      Lunch 1h 30m
    • 14:00 15:30
      Bioinformatics Room X

      Room X

      Uppsala University

      Life Sciences is a very active field of research using the EGEE infrastructure. Several EGEE related projects are also exploring the use of gLite middleware for bioinformatics and healthcare. The User Forum is a wonderful opportunity to get an overview of the present adoption of grids in the Life Sciences communities through the dedicated oral sessions session but also through the posters and demos exhibition. Complementary to the "medical imaging" session, the "bioinformatics and biomedicine" session programme reflects the variety of topics currently addressed on EGEE and its related projects in the field of life sciences.

      • 14:00
        A Grid Implementation For Genetic Linkage Analysis 20m
        The Genetic Linkage Analysis of SNP markers aims to discover the genetic correlation in monogenic diseases by following their inheritance in families through the generations. The computational cost and memory requirements of the major algorithms in literature make large data sets very hard to be analyzed on a single CPU. The work here presented is a Grid implementation of a data pipeline application for Linkage Analysis, a web based tool for Grid submission, monitoring and retrieval of Linkage challenges with large pedigrees and big markers datasets derived from genotyping chips up to 1M SNPs.
        Speaker: Dr Luciano Milanesi (National Research Council - Institute of Biomedical Technologies)
      • 14:20
        Distributed System Based Strategies for Search, Design and Evaluation of COMBO-FISH probe sets 20m
        A prominent means to detect genetic aberrations is the method of fluorescence in situ hybridization FISH. To avoid labelling large genomic regions by one polynucleotide like in standard FISH, for COMBO-FISH we search for a set of about 30 colocalizing short sequences with the requirement that no more than 4 of these stretches colocalize within 250 kb anywhere else in the genome. The exact search is parallelized and applied to certain subsets motivated by kinetics and stability considerations.
        Speaker: Dr Eberhard Schmitt (University of Heidelberg, 69120 Heidelberg, Im Neuenheimer Feld 227)
      • 14:40
        Setup and usage of an e-BioScience infrastructure for high throughput DNA sequence analysis 20m
        Current DNA sequencers produce a large amount of data. Because the amount of data is growing and the computation time for analysis is increasing, we initiated a pilot to run applications on the Dutch Grid (Big Grid, part of EGEE). We used the software platform that was developed for medical imaging in the VL-e project (e-BioInfra), and applied it to DNA sequence analysis. With the knowledge gained in this pilot, we now use this platform routinely for computational intensive analyses.
        Speaker: Mrs Barbera DC van Schaik (Academic Medical Center)
        Slides
      • 15:00
        Grid-based International Network for Flu Observation 20m
        Since the H1N1 outbreak lately, there has been a worldwide effort to isolate and sequence flu virus genomes. Specimens with a positive result are sequenced and deposited in influenza databases. The present EUAsiaGrid application, called g-INFO (Grid-based International Network for Flu Observation), shows the integration of existing data sources towards a global surveillance network for molecular epidemiology, based on Service Oriented Architecture and Grid technologies. Its relevance is being tested through the current H1N1 outbreak.
        Speaker: Ms Ana Lucia DA COSTA (HealthGrid)
        Slides
    • 14:00 15:30
      Computational Chemistry Room IV

      Room IV

      Uppsala University

      The EGEE series of projects brought computational chemistry on a grid to a new level: from a small group of users to a second resource consumer just after High Energy Physics. Chemical applications on EGEE Grid cover a wide area ranging from quantum dynamics computations for small molecular systems through ab initio simulations up to molecular dynamics studies of huge molecular systems of biological and industrial importance.

      The User Forum is an annual EGEE conference whose unique character descends from the fact that grid users can meet together with developers. This year dedicated oral talks and accompanying posters detail not only current development on the EGEE grid of the computational chemistry domain traditional subjects. Large part of the conference session is instead devoted to the rapid evolution of computational chemistry tools to the quickly approaching EGI era. Typical examples of this are web services enabling easy use of chemical software on the Grid or implementation of new techniques enabling computation of various energy derivatives – crucial for determination of many molecular properties.

      • 14:00
        pKa Calculations of Key Ionizable Protein Residues in Acetylcholinesterase 20m Room IV

        Room IV

        Uppsala University

        One of the most abundant quantities characterising proteins is its isoelectric point, which is directly dependent on the number of charged ionizable residues, on the pKa of all ionizable residues more exactly. In this work, the pKa of buried protein aminoacids are estimated using method based on molecular dynamics called thermodynamic integration. The main scope is to compute pKa in acetylcholinesterase, but the computations on a small protein, thioredoxin, will be also presented as benchmark calculations.
        Speaker: Mr Jiri Wiesner (Masaryk University)
        Slides
      • 14:20
        Protein Molecular Dynamics and Free Energy Calculations on the EGEE Production Grid 20m Room IV

        Room IV

        Uppsala University

        Atomistic simulations of large biomolecules such as proteins require extensive computational resources. Dynamical and thermodynamical properties can be obtained either by averaging over very long time trajectories or sampling the phase space by running hundreds of short time trajectories. The latter methods are the most appropriate for high throughput computers such as the Grid distributed computers. Algorithms are presented for calculating vibrational spectra of the active site of cytochrome c oxidase as well as free energy landscapes based on thermodynamic perturbation theory.
        Speaker: Stavros Farantos (Foundation for Research and Technology-Hellas/ Institute of Electronic Structure and Laser)
      • 14:40
        A multiconfiguration time-dependent Hartree algorithm for non-Born-Oppenheimer calculations 20m Room IV

        Room IV

        Uppsala University

        We have embarked upon a project of performing dynamical calculations treating electrons and nuclei on exactly the same footing, considering all particles as degrees of freedom of a dynamical system. In that way, the Born-Oppenheimer approximation is circumvented. The very concept of a potential energy surface is abolished and the problems associated with kinetic energy couplings or Berry phase simply vanish. Since an exact treatment of this kind would be prohibitive, we split the various degrees of freedom according to a MCTDH scheme.
        Speaker: Dr Dimitrios Skouteris (University of Perugia)
      • 15:00
        MCTDH Quantum Dynamics in EGEE: Advances Made and Improvements needed 20m Room IV

        Room IV

        Uppsala University

        Our communication provides a detailed description of the present performance of grid-Fluss and grid/MCTDH, tools for the direct quantum-mechanical calculation of kinetic coefficients, implemented on the section of the production computing Grid of EGEE accessible to the COMPCHEM virtual organization. The performance and reliability of the method is illustrated by presenting the results of two computational campaigns: the N + N2 reaction and the CH4 + Ni(111) dissociative sticking process.
        Speaker: Dr Fermin Huarte (University of Barcelona)
    • 14:00 15:30
      EGI Session Auditorium

      Auditorium

      Uppsala University

    • 14:00 15:30
      Earth Science Room IX

      Room IX

      Uppsala University

      The Earth Science (ES) community with its mosaic of disciplines and contributors (academia, industry and, national and international organization) provides a scientific basis for addressing social, research and industrial issues as it is shown in the abstract on ES applications of the ES virtual research community. Some crucial points are the existing large data repositories in data centers outside the Grid infrastructures and the fact that the earth science data are always referred at least to 3 coordinates, geographical location (latitude & longitude) and time, and in many cases to 4 coordinates as activities related with spatial data, such as applications from public sector e.g. cadastre, topography, census, traffic, all public information, civil protection related on flood, fire or earthquake, industry, research and so forth. Due to the large volume of data and their heterogeneity (resolution in the 4D, different formats) the ES community has developed tools in particular to access them, to exploit and integrate them.

      This session reflects many aspects of this community. Its worldwide aspect is exhibited by abstracts from teams of 11 European countries and one from Taiwan, partner of the ES cluster. Several environmental and societal issues are addressed and they concern more specifically hydrology (Black Sea Catchment– EU project, EnviroGrids), meteorology, pollution, seismology, fire evolution (Portuguese funded project, Cross-Fire), fisheries and aquaculture with monitoring and risk management approaches. Porting applications is not enough to satisfy the requirements of end-users. Due to the complexity of the application, workflows have been developed and one example is given for the fisheries and aquaculture communities. Two abstracts concern the use, with Grid, of GIS components based on Web services and provided by OGC (Open Geospatial consortium). Their integration within a platform or gateway will be very useful for decision makers as well as all public. To address the issue of exploring large data sets, different data mining tools are commonly used in ES and have been applied in the framework of the European project, ADMIRE. Training platforms are a key point to introduce new end-users to the grid infrastructure and to demonstrate the powerfulness of an Grid environment, one example is shown with satellite earth observation data. Finally, after a decade of European Grid projects and effort of building the ES Grid community, critical issue is it sustainability and its structure to maintain and facilitate collaboration, expertise.

      • 14:00
        ES cluster towards ES VRC 20m
        The ES community has actively participated in the EGEE projects as Strategic Discipline Clusters. In the framework of the DCI infrastructure and its related services deployed by the European Grid Initiative (EGI), the ES VRC will gather all ES partners to bring their contribution, i.e. resource and service providers, developers, support teams as well as end-users. This network of support and expertise is constituted within the ES VRC by a kernel of partners with Grid expertise in order to break down the entry barrier and overcome some of the technical difficulties that otherwise exist.
        Speaker: Mr Horst Schwichtenberg (SCAI Fraunhofer Institute)
        Slides
      • 14:20
        Gridifying the Soil and Water Assessment Tool (SWAT) for the sustainable development of the Black Sea region 20m
        The Soil and Water Assessment Tool (SWAT) is one of the main tools used in the hydrology community. In the EU/FP7 EnviroGRIDS project it is used to study the Black See catchment and to simulate complex scenarios. In several cases, such as the study of the interplay of global and local scenarios, the availability of substantial computing resources in the Grid is important.
        Speaker: Mr Lukasz Kokoszkiewicz (CERN)
      • 14:40
        Geospatial and Grid infrastructures interoperability in enviroGRIDS 20m
        EnviroGRIDS (Black Sea Catchment Observation and Assessment System supporting Sustainable Development) is a 4-years FP7 Project aiming to address the subjects of ecologically unsustainable development. The geospatial technologies offer very specialized functionality for Earth Science oriented applications as well as the Grid oriented technology that is able to support distributed and parallel processing. One challenge of the enviroGRIDS project is the interoperability between geospatial and Grid infrastructures by providing the basic and the extended features of the both technologies.
        Speakers: Mrs Denisa RODILA (Technical University of Cluj-Napoca), Prof. Dorian Gorgan (Technical University of Cluj-Napoca)
        Slides
      • 15:00
        Bridging the gap between applications geospatial data and the Grid 20m
        CROSS-Fire is a Portuguese NGI funded project aiming to develop a grid-based risk management decision support system for the Civil Protection (CP), using forest fires as the main case study and FireStation (FS) as an application that simulates the fire spread over complex topography. CROSS-Fire uses EGEE to provide raw technological capability provision, including data management and storage, access to meta-data data bases and HPC and a Geospatial Information Infrastructure based on OCG-SWE Web Services to provide the access and management of remote geospatial data and meteorological data.
        Speaker: Joel Puga (Universidade do Minho)
    • 15:30 16:00
      Coffee break 30m
    • 16:00 17:30
      ESFRI session Auditorium

      Auditorium

      Uppsala University

      The European Strategy Forum on Research Infrastructures Roadmap states that Research Infrastructures “often require structured information systems related to data management, enabling information and communication. These include ICT-based infrastructures such as Grid, computing, software and middleware.” and continues with “e-Infrastructures are critical to all projects in this roadmap”.

      A dialog has started between individual ESFRI projects and existing ICT-based infrastructures to understand how best they can make use of e-Infrastructures.

      A session at EGEE09 (Barcelona, September 2009) saw 11 ESFRI projects outline their views and the e-infrastructure projects explained how they can help. From this session emerged the common wish to work closer together and elaborate better the e-infrastructure requirements for the future. Subsequently there have been a number of meetings organised by the EC and the ESFRI projects themselves that have advanced the understanding.
      The e-infrastructure projects have jointly, via the European Einfrastructure Forum, made an initial survey of the requirements.

      At this session we will check the status of the interaction, present a first analysis of the requirements and plan how to proceed for the future.
      This will also be the opportunity for those ESFRI projects, that were not present at earlier events, to become aware of the developments and present their requirements.

      • 16:00
        Introduction 10m
        Speaker: Bob Jones (CERN)
      • 16:10
        SIOS 20m
        Speaker: Georg Heinrich Hansen
        Slides
      • 16:30
        CESSDA 20m
        Speaker: John Shepherdson (UK Data Archive)
        Slides
      • 16:50
        Analysis of ESFRI projects e-infrastructure requirements by European e-Infrastructure Forum 20m
        Speaker: Bob Jones (CERN)
        Slides
      • 17:10
        Discussion and next steps 20m
    • 16:00 17:30
      Earth Science Room IX

      Room IX

      Uppsala University

      The Earth Science (ES) community with its mosaic of disciplines and contributors (academia, industry and, national and international organization) provides a scientific basis for addressing social, research and industrial issues as it is shown in the abstract on ES applications of the ES virtual research community. Some crucial points are the existing large data repositories in data centers outside the Grid infrastructures and the fact that the earth science data are always referred at least to 3 coordinates, geographical location (latitude & longitude) and time, and in many cases to 4 coordinates as activities related with spatial data, such as applications from public sector e.g. cadastre, topography, census, traffic, all public information, civil protection related on flood, fire or earthquake, industry, research and so forth. Due to the large volume of data and their heterogeneity (resolution in the 4D, different formats) the ES community has developed tools in particular to access them, to exploit and integrate them.

      This session reflects many aspects of this community. Its worldwide aspect is exhibited by abstracts from teams of 11 European countries and one from Taiwan, partner of the ES cluster. Several environmental and societal issues are addressed and they concern more specifically hydrology (Black Sea Catchment– EU project, EnviroGrids), meteorology, pollution, seismology, fire evolution (Portuguese funded project, Cross-Fire), fisheries and aquaculture with monitoring and risk management approaches. Porting applications is not enough to satisfy the requirements of end-users. Due to the complexity of the application, workflows have been developed and one example is given for the fisheries and aquaculture communities. Two abstracts concern the use, with Grid, of GIS components based on Web services and provided by OGC (Open Geospatial consortium). Their integration within a platform or gateway will be very useful for decision makers as well as all public. To address the issue of exploring large data sets, different data mining tools are commonly used in ES and have been applied in the framework of the European project, ADMIRE. Training platforms are a key point to introduce new end-users to the grid infrastructure and to demonstrate the powerfulness of an Grid environment, one example is shown with satellite earth observation data. Finally, after a decade of European Grid projects and effort of building the ES Grid community, critical issue is it sustainability and its structure to maintain and facilitate collaboration, expertise.

      • 16:00
        Experiences on porting and running a Climate - Air Quality Modeling System on the Grid 20m
        We present results of regional climate-air quality simulations performed over Europe for the future decade 2091-2100 and the control decade 1991-2000 and briefly discuss the impact of climate change on air quality metrics over Europe throughout the 21st century. In order to meet the increased demands on computational resources the high resolution simulations were performed on the EGEE Grid. Special tools to allow for easy coupling of RegCM3 and CAMx on the underlying resources have been developed and we briefly discuss the benefits and drawbacks of using the Grid for such simulation campaigns.
        Speakers: Dr Eleni Katragkou (Laboratory of Atmospheric Physics, School of Physics, Aristotle University of Thessaloniki), Mr Paschalis Korosoglou (Grid Operations and HPC Centre, Aristotle University of Thessaloniki)
        Slides
      • 16:20
        Grid implementation and application of the WRF-ARW prognostic model 20m
        In this work the implementation and deploying of the Advanced Weather Research and Forecasting (WRF-ARW) model on the SEEGRID-SCI grid infrastructure is presented. The goal of porting the model to the grid is to get more accurate and detailed forecast with operational speed-up on high-resolution model grids. The results and the application of the WRF model will be shown through the examples of the operational weather forecast, foehn effects over Banja Luka in Bosna and Hercegovina (BIH) and bora winds simulations over the Adriatic coast in Croatia.
        Speaker: Mr Davor Davidovic (Ruđer Bošković Institute, Zagreb, Croatia)
      • 16:40
        Climate data storage in e-INIS 20m
        We describe the federated national datastore activity of the e-INIS project, aimed at building a sustainable national e-Infrastructure for the Irish academic research community and how the CMIP5 project is using the datastore to meet their storage requirements. The datastore builds upon existing infrastructure and services, including Grid-Ireland, the National Grid Initiiative. Read access to the data is to be offered to international researchers using GeoNetwork and OPeNDAP, requiring that Grid technology be interfaced with community technologies using e-INIS's bridge servers.
        Speaker: Dr Geoff Quigley (Trinity College Dublin)
        Slides
      • 17:00
        Computational Requirement of Meteorological and Crisis Applications 20m
        We present several applications from the domain of meteorology and crisis management that we developed and/or plan to develop. In particular, we present the IMS Model Suite - a complex software system designed to address the needs of accurate forecast of weather and hazardous weather phenomena, environmental pollution assessment, prediction of consequences of nuclear accident and radiological emergency. We discuss the computational requirements and our experiences on how to meet them by grid computing.
        Speaker: Juraj Bartok (Microstep-MIS)
    • 16:00 17:30
      Medical Imaging Room X

      Room X

      Uppsala University

      This section includes some medical imaging community contributions to the exploitation of the EGEE grid infrastructure. Applications to cardiac, brain and lung image analysis are presented. Emphasis is put on the domain services deployed on top of the core middleware to implement the applications and conduct experiments. In particular, workflow tools are extensively used to describe applications logic and provide a high level interface to the grid. Application-level reliability improvement mechanisms are also being described

      • 16:00
        Gwendia workflows for cardiac image analysis 20m
        We will present the description of a cardiac image analysis workflow with the new Gwendia language and its enactment on two different grid platforms, namely EGEE (using the MOTEUR workflow engine) and Grid'5000 (using the DIET workflow engine). Technical achievements enabling the execution of the very same workflow on those two grids will be presented. Finally, early application results (both performance and medical imaging) will be reported.
        Speaker: Mr Johan Montagnat (University of Nice Sophia-Antipolis - I3S)
        Slides
      • 16:20
        Experience feedback on some scientific gateway components for medical imaging applications 20m
        This presentation summarizes experience acquired at Creatis with some Scientific Gateway components to deploy medical imaging applications on the EGEE grid during the last years. We will detail feedback about various tools that we tested, including pilot-job systems, workflow managers, user front-ends, monitoring components and data management systems. Based on application use-cases ported at the lab, we will discuss advantages and drawbacks of these gateway components and highlight remaining challenges. Finally, an integration of some components in a coherent grid environment will be shown.
        Speaker: Mr Tristan Glatard (CNRS - CREATIS)
        Slides
      • 16:40
        Grid-enabled Medical Image Analysis: From Jobs to Workflow-based Service 20m
        Medical image analysis requires large computational effort. The construction of “atlases” specific for each study of a specific brain disease is a good illustration: typically all images need to be aligned (registered) to each other. In this work we explore the Dutch Grid (part of EGEE) to implement a service that automates the construction of such atlases for Diffusion Tensor Imaging (DTI), facilitating usage by neuroimaging researchers. Initial experiments show that the service is robust and valuable for medical imaging research.
        Speaker: Dr Silvia Olabarriaga (Academic Medical Center of the University of Amsterdam)
        Slides
      • 17:00
        Medical image indexing and retrieval in a distributed computing environment 20m
        The problem of indexing and content-based retrieval of medical images in a distributed computing infrastructure is discussed in the paper. It is considered in the context of a national-wide lung screening and diagnosis programme which is currently under development. High-resolution images are drawn from a test database containing results of X-ray chest examination of about 250000 people. The image content indexing and retrieval software is developed using GRID middleware UNICORE and a communication protocol MPI.
        Speaker: Mr Ihar Safonau (United Institute of Informatics Problems of the National Academy of Sciences of Belarus, Minsk, Belarus)
        Slides
    • 16:00 17:30
      Novel Architectures and Technologies Room IV

      Room IV

      Uppsala University

      Technologies such as clouds and virtualization are attracting a lot of interest in grid and e-science worlds. With respect to grid systems, they are often seen as complementary or as natural extensions, but sometimes as competitors. In this session, a number of talks will report experience in using cloud technology and services, as well as virtualization, in scientific applications. Other presentations present frameworks and tools to ease the integration of new technologies in the grid landscape. Overall, we will attempt to better understand the opportunities and potential pitfalls in adopting these technologies such that future architectures leverage this important pool knowledge acquired and shared by early adopters.

      • 16:00
        Parameter sweep job submission to Eucalyptus clouds 20m
        Large parameter sweep applications require large number of resources. Unfortunately the average number of processors in EGEE VOs is between 500-800 processors that is far not enough for large parameter sweep applications. The situation can be improved if jobs of such parameter sweep applications can be distributed to available cloud resources, too. The interconnection of P-GRADE portal with clouds enable this execution scenario. The talk explains how the interconnection of P-GRADE with Eucalyptus has technically been solved and how this new system can be used by the end-user communities.
        Speaker: Peter Kacsuk (SZTAKI)
        Slides
      • 16:20
        A Business-Driven Cloudburst Scheduler for Bag-of-Task Applications 20m
        Opportunistic peer-to-peer (P2P) grid computing infrastructures have been proven to be cheap and effective platforms to run Bag-of-Tasks (BoT) applications. They operate on a best-effort model, which is understandable given their negligible cost. However, for some applications that could benefit from these infrastructures, having some guarantees on the time that takes to complete is an important requirement. In this work we investigate the possibility of combining a P2P grid with a cloud computing provider to provide some quality of service (QoS) guarantees.
        Speaker: Prof. Francisco Brasileiro (UFCG)
        Slides
      • 16:40
        Enabling the use of e-Infrastructures with Microsoft HPC and the Matlab distributed compute server 20m
        Many scientists with smaller scale problems could benefit from e-Infrastructures but are often discouraged by their complexity. These users have little experiences with shell based Linux environments typically offered; instead, they often use Windows-based platforms and higher level packages like Matlab. In this talk we present a case study from microsystems research, focusing on how the usage of recent technologies like the Microsoft HPC server and the Matlab distributed computing toolbox can improve the productivity of the researchers and allows them to exploit existing e-Infrastructures.
        Speakers: Mr Erwin Laure (PDC-Centre of High Performance Computing, KTH), Mr zeeshan ali shah (PDC-Centre of High Performance Computing, KTH)
        Slides
      • 17:00
        EDGeS infrastructure for the EGEE user community 20m
        There is a strong collaboration between EGEE and EDGeS in order to extend the EGEE infrastructure with volunteer and institutional desktop grids (DG) and to support EGEE users to migrate their application to the EDGeS infrastructure. The talk explains to EGEE users how this integrated infrastructure works, what the benefits are and how their applications can be ported and run on this infrastructure. The talk also explains how individual VOs can extend their VO resources with connected DGs. Experiences in related projects (IberCivis, EELA) using EDGeS technology will be presented.
        Speaker: Peter Kacsuk (SZTAKI)
        Slides
    • 19:00 23:00
      Gala dinner 4h Uppsala Castle (Uppsala Castle)

      Uppsala Castle

      Uppsala Castle

    • 09:00 10:30
      Technical Plenary Auditorium

      Auditorium

      Uppsala University

      • 09:00
        Advanced computing for fusion simulation and modelling 45m
        ITER is the next generation of fusion devices and is intended to demonstrate the scientific and technical feasibility of fusion as a sustainable energy source for the future. To exploit the full potential of the device and to guarantee optimal operation for the device, a high degree of physics modelling and simulation is needed even in the current construction phase of the ITER project. The detailed modelling tools that are needed for an adequate description of the underlying physics cover both a wide range of timescales and spatial orderings and are in general very demanding from a computational point of view. Current modelling activities rely on local or national computational resources and an improved access to computing infrastructures will be instrumental in advancing a pan-European modelling activity for ITER to a very competitive status in relation to the ITER partners. The EUFORIA project is developing a comprehensive framework and infrastructure for core and edge transport and turbulence simulation, linking grid and High Performance Computing (HPC), to the fusion modelling community. EUFORIA is enhancing the modelling capabilities for ITER sized plasmas through the adaptation, optimization and integration of a set of critical applications for edge and core transport modelling targeting different computing paradigms as needed (serial and parallel grid computing and HPC). Deployment of both a grid service and a High Performance Computing service have proven essential to the project. A novel aspect is the dynamic coupling and integration of codes and applications running on a set of heterogeneous platforms into a single coupled framework through a workflow engine, a mechanism needed to provide the necessary level of integration between the physics applications. This strongly enhances the integrated modelling capabilities of fusion plasmas and will at the same time provide new computing infrastructures and tools to the fusion community in general. Current status, lessons learned and future prospects are reviewed in the project.
        Speaker: Dr Pär Strand (Chalmers University of Technology)
        Slides
      • 09:45
        LHC: an Example of a Global Scientific Community 45m
        With the advent of large scale scientific instruments, the need for global collaborations in science has arisen. High Energy Physics and LHC in particular has long experience in collaboration on this scale and can serve as a model for other communities which now have to face similar challenges. This talk will give an overview of the need for LHC and the collaborative efforts that have built the accelerator, the experiments and the computing. The computing has benefitted from the e-science infrastructures built in Europe and elsewhere while pushing those infrastructures to unprecedented levels of scale and performance. With the arrival of first data in the LHC experiments, the investments in the computing are paying off in being able to very rapidly analyse the data. The talk will discuss the role of High Energy Physics and CERN in the European and worldwide scientific landscape and how this might develop in the future.
        Speaker: Sergio Bertolucci (CERN)
        Slides
    • 10:30 11:00
      Coffee break 30m
    • 11:00 12:30
      Computer Science Room IX

      Room IX

      Uppsala University

      For the first time, an EGEE User Forum will feature a general Computer Science session. Indeed, many contributions come from Computer scientists that exploit the grid to run large-scale computations, for Machine Learning, Optimization, Game theory, and Complex networks. Phenomenology of the algorithms, theoretical results based on large experiments, and inter-disciplinary applications will be described, at various levels form mature tools to research-focused work. The Grid Observatory Cluster of EGEE-III will also present recent advances in exploration and analysis tools that are oriented towards the scientific view of grids. The session will be an opportunity to:

    • promote interaction amongst the computer science research community using or analyzing the grid, which is grounded on the above-mentioned scientific areas;
    • demonstrate examples of experimental work on grid analysis and optimization.

  • 11:00
    Towards an interoperable representation of the Grid Observatory information: an experiment with Common Base Event 20m Room IX

    Room IX

    Uppsala University

    Reaping the full benefit of the Grid Observatory (GO) initiative requires providing end-users with convenient representation of the traces. The present lack of standardization creates considerable difficulties for developing automated analysis and situation handling solutions. We report an experiment on the representation of internal logs of the gLite WMS with the IBM Common Base Event (CBE) format, categorizing the information of hundred of thousand events to a few generic type situations, with potential applications of the open-source supporting technologies to job monitoring.
    Speaker: Dr Philippe Gauron (LRI)
    Slides
  • 11:20
    Modeling Grid Job Time Properties 20m Room IX

    Room IX

    Uppsala University

    Large-scale analysis of grid job data, consisting of more than 28 million jobs gathered during 20 months from all major EGEE Resource Brokers, provides interesting results regarding the properties of job time parameters. The main parts in a job’s life cycle are observed to have different distributions, having also different origins that cause these behaviors. While ‘match time’ parameter corresponds better to power law distribution,the total job length is well modeled with log-normal distribution. Here we attempt to fit the distributions and give explanation through generative models.
    Speaker: Mr Lovro Ilijasic (University of Turin)
    Slides
  • 11:40
    An investigation of the effect of clustering-based initialization on Learning Classifier Systems' effectiveness: leveraging the Grid infrastructure 20m Room IX

    Room IX

    Uppsala University

    Strength-based Learning Classifier Systems (LCS) are machine learning systems designed to tackle both sequential and single-step decision tasks by coupling a gradually evolving population of rules with a reinforcement component. ZCS-DM, a Zeroth-level Classifier System for Data Mining, is a novel algorithm in this field, recently shown to be very effective in several benchmark classification problems. In this paper, we evaluate the effect of clustering-based initialization on the algorithm’s performance, utilizing the EGEE infrastructure as a robust framework for an efficient parameter sweep.
    Speakers: Ms Fani Tzima (Aristotle University of Thessaloniki), Mr Fotis Psomopoulos (Aristotle University of Thessaloniki)
    Slides
  • 12:00
    Grid-enabled parameter initialization for high performance machine learning tasks 20m Room IX

    Room IX

    Uppsala University

    In this work we use the NeuroEvolution of Augmented Topologies (NEAT) methodology, for optimising Echo State Networks (ESNs), in order to achieve high performance in machine learning tasks. The large parameter space of NEAT, the many variations of ESNs and the stochastic nature of evolutionary computation, requiring many evaluations for statistically valid conclusions, promotes the Grid as a viable solution for robustly evaluating the alternatives and deriving significant conclusions.
    Speakers: Mr Fotis Psomopoulos (Aristotle University of Thessaloniki), Mr Kyriakos Chatzidimitriou (Aristotle University of Thessaloniki)
  • 11:00 12:30
    EGEE Collaboration Board (Closed) IV

    IV

    Uppsala University

    The agenda for session is protected: http://indico.cern.ch/conferenceDisplay.py?confId=90276

    Agenda
  • 11:00 12:30
    Fusion Room XIII

    Room XIII

    Uppsala University

    Fusion activities have overpassed the grid during the last period, since we implemented several complex workflows among applications that run on different architectures, including gird and High Performance Computers. During the session, the main achievements on application porting, as well as on complex workflows implementation on grids and HPCs will be presented.

    Apart from EGEE, there exist the EUFORIA project that links the fusion, the grid and the HPC communities and allow the building of workflows among applications that explain different aspects of the physics involved in fusion reactors.

    • 11:00
      Overview of the grid fusion applications and the possible workflows among them 20m
      Grid computing developments have increased substantially in fusion research. A great variety of applications have been ported to the grid in the frame of EGEE, EELA and EUFORIA projects. These applications belong to different plasma physics domains and different strategies have been used to port them, depending on the nature of the applications. These codes are ready to establish workflows among them in order to produce new relevant physics results that could not be achieved running the applications separately
      Speaker: Dr Francisco Castejón (CIEMAT)
    • 11:20
      Montera: a framework for efficient executions of Monte Carlo codes on the Grid 20m
      Monte Carlo codes constitute a powerful tool for scientific computing. Because of their architecture their parallelization is straightforward, and they have been successfully ported to the Grid in multiple occasions. However, there is still a lack of a deep analysis on their optimization for being executed on a distributed environment. To solve this issue we present Montera, a framework that efficiently executes this kind of codes on Grid infrastructures making the most of their particularities.
      Speaker: Mr Manuel Rodriguez-Pascual (CIEMAT)
    • 11:40
      Fusion metadata navigation and data delivery services 20m
      The services for user-friendly metadata navigation and data delivery have been developed. The metadata service enables exploring of fusion-specific data storage via a web browser. The data delivery service allows to download a required piece of data from Storage Elements using a link obtained from the metadata service.
      Speaker: Dr Igor Semenov (RRC "Kurchatov institute")
    • 12:00
      Numerical reconstruction of fusion-origin carbon structures using refactored GIF portal 20m
      Two developed technologies are shown. The top one is a method for the massive modelling of X-ray propagation in carbon films found in fusion devices as well as numerical reconstruction of such films composition. The basic technology is the strongly re-factored GIF portal that allows the development of high-level logics and user web interface for such grid applications.
      Speaker: Mr Vladimir Voznesensky (Kurchatov Institute)
  • 11:00 12:30
    High Energy Physics Room X

    Room X

    Uppsala University

    The High Energy Physics (HEP) community has been both an early adopter of grid technology as well as a driving force behind EGEE and other grid projects. The Worldwide LHC Computing Grid (WLCG) builds on the infrastructures established by these projects and has been successfully used for LHC data taking, processing and analysis.

    The most important elements of the Grid infrastructure provided for the experiments will be presented during this session; the computing models of the experiments, the operation protocols used at the sites, and the end-user analysis infrastructures. In addition, other related communities are represented at this session such as Synchrotron Radiation Facilities. Therefore, the HEP session will be a forum where common aspects of Grid computing infrastructure used by different large communities will be discussed.

    The EGEE User Forums have always provided an ideal framework to share experiences between Grid users, and to trigger collaborations between different clusters. The topics that will be presented and discussed during this session will encourage the continuation of existing collaborations and hopefully initiate new ones.

    Introduction To The Session
    • 11:00
      LHCb operations: organizations, procedures, tools and critical services. 20m
      The proliferation of tools for monitoring both activities and the status of the critical services, together with the pressing need for prompt reactions to problems impacting data taking, user analysis and scheduled activities (e.g. MC simulation) brings the need of better organizing the huge amount of information available. The monitoring system for the LHCb Grid Computing relies on many heterogeneous and independent sources of information offering different views for a better understanding of problems while an operations team and defined procedures have been put in place to handle them.
      Speaker: Dr roberto santinelli (CERN/IT/GD)
      Slides
    • 11:20
      Distributed Computing and Data Analysis in the CMS Experiment: the Spanish and Portuguese case 20m
      By the end of 2009, the CMS Experiment at the Large Hadron Collider (LHC) has already started data taking with proton collisions at 450 GeV and 1.2 TeV per beam. CMS has invested a few years to build a robust Distributed Computing system to meet the expected performances in terms of data transfer/archiving, calibration, reconstruction, and analysis. Here, we will focus on the readiness of the Spanish and Portuguese computing centers (PIC [Tier-1], CIEMAT, IFCA, LIP-Lisbon, and NCG-INGRID-PT [Tier-2s]) to first LHC collisions and the measured performance in the Iberian region by April 2010.
      Speaker: Dr Jose Flix Molina (Cent. Invest. Energ. Medioamb. Tec. (CIEMAT))
      Slides
    • 11:40
      The Grid as an Extended Application Service Provider in an Synchrotron Radiation Facility 20m
      The Synchrotron Radiation Facilities (SRF), as large research establishments, have a very important role in Science and a great impact in the community. Due to the data-parallelism of the computational problems in the general field of physical sciences and the very high data volumes in terms of storage, the Grid Computing has been a successful paradigm. But other than their Computational requirements there are additional Grid characteristics and features that can be highly useful. We discuss the Grid utilisation in the SRF ELETTRA.
      Speakers: George Kourousias (Sincrotrone Trieste S.C.p.A.), Milan Prica (Sincrotrone Trieste S.C.p.A.), Roberto Pugliese (Sincrotrone Trieste S.C.p.A.)
      Slides
    • 12:00
      ATLAS Distributed Computing in Spain and Portugal: from data challenges to real data 20m
      The ATLAS PIC cloud is composed of the Iberian sites: PIC (Tier-1), IFAE, IFIC, UAM, LIP-Lisbon, LIP-Coimbra and NCG-INGRID-PT (Tier-2s) and is finalising preparations for the LHC data taking. To achieve readiness for data taking, all sites has been involved in the ATLAS Distributed Computing activities since early 2006: simulated event production, reprocessing, data and user analysis challenges and cosmic data taking. The evolution of the computing and operations activities from data challenges to the real data is described in this talk giving experiment and site experiences.
      Speaker: Dr Xavier Espinal (PIC/IFAE)
      Slides
  • 11:00 12:30
    Regional Activities, International Projects and Collaborations Auditorium

    Auditorium

    Uppsala University

    International grids cross national boundaries, spanning cultures, languages and technologies to create international resources and enable global science. With hundreds of grids running worldwide, there are many lessons to be learnt from international projects and collaborations, and this session brings together representatives of grids in Europe, Latin America, South Africa and the Asia-Pacific region. Key to European science in the future will be the European Strategy Forum on Research Infrastructures roadmap projects. This session explores integrating instrumentation with e-Infrastructures for the potential benefit of these projects, as well as presenting case studies of combining Virtual Research Environments (VREs) with grid technologies.

    Dissemination activities such as publications, events, social media and community-building websites help to bring user communities together. This session gathers together best practices based on the lessons learnt during the EGEE project. Also explored are the requirements of experimental scientists to steer, control and monitor instruments and sensors remotely. A prototype system developed by DORII will be presented. The D4Science-II project provides a number of VREs to address the needs of the Fisheries and Aquaculture community. Case studies discussed include the Aquamaps VRE that generates species distribution maps, the ICIS VRE’s repository of statistical datasets and the FCPPS VRE, which provides country profile report templates.

    SEE-GRID in South Eastern Europe will present improvements to the usability and services for its end users, including operational tools for monitoring, alerting, job tracking and security as well as application services such as advanced workflows, better data and file management and new applications platforms. EELA-2 in Latin America also presents its enhancements to the functionality of the gLite middleware, which has widened the number of potential applications and sped up the porting process.

    The Nordic Data Grid Facility’s experiences in bringing on board a new user community, the materials science virtual organisation are also presented. The main goal of the project was to enable non-LHC scientists to run their jobs on ARC enabled resources. On a wider scale, the South African National Grid Initiative aims to deploy a production-quality regional e-Science infrastructure for all South African researchers. Benefits are already being seen in the areas of physics, geomatics and bioinformatics and, through collaboration with the HP/UNESCO project, the seeds of the first regional African grid initiative. EUAsiaGrid brings together researchers from the Asia-Pacific region, and presents its progress in building, maintaining and developing e-Infrastructure within the region, together with a roadmap towards a sustainable and persistent multinational digital platform.

    Slides
    • 11:00
      Disseminating the Grid: An essential guide 20m
      When it comes to dissemination, what works and what doesn't? During EGEE-III, NA2 has coordinated a rich programme of activities through an increasingly wide range of media – press releases, booths, blogs, Twitter and websites to name just a few. This session gathers together best practices based on the lessons learnt with input from collaborating dissemination project, GridTalk. Practical examples and case studies highlight how to deal with the media, make an impact on policy makers, get business leaders interested in the grid and bring new user communities on board.
      Speakers: Ms Catherine Gater (EGEE), Mr Neasan O'Neill (QMUL), Mr Sy Holsinger (Trust-IT)
      Slides
    • 11:20
      Instruments and sensors supported by e-Infrastructure 20m
      The introduction gives the major objectives and the idea of instrument and sensor remote steering, controlling and monitoring. The second part presents the user experiences and requirements following a proposition of the general architectural framework. The way of integrating instrumention with existing e-Infrastructure is especially important for the ESFRI projects, where most are using some equipment for data capturing and computing resources for further simulations.
      Speaker: Mr Norbert Meyer (Poznan Supercomputing and Networking Center)
    • 11:40
      Building Scientific Workflows for the Fisheries and Aquaculture Management Community based on Virtual Research Environments 20m
      The management of resources related to the Fisheries and Aquaculture (FARM) domain is complex and involves different scientific activities. The people involved in the domain are distributed worldwide: scientists in the field, regional statistics departments, national governing bodies, etc. Distributed information must be produced, analyzed, processed, shared, and preserved by all multiple actors through a number of scientific workflows. The D4Science-II project provides a number of Virtual Research Environments (VREs) to address the collaboration needs of this community.
      Speaker: Mr Pedro Andrade (CERN)
      Slides
    • 12:00
      Improvements of the grid infrastructure and services within SEE-GRID 20m
      Enlargement of the grid user community is probably the most important challenge of the grid infrastructure development community. To attract new users, with new applications and needs, the infrastructure should be flexible enough to satisfy their needs and requirements. We present the experience of the development community from the SEE-GRID-SCI project, organized in a Joint Research Activity. The main focus if this JRA was to improve the usability of the infrastructure and Grid services for the end-users from target communities, as well as manageability of the underlying infrastructure.
      Speaker: Dr Misev Anastas (Faculty of Natural Science and Mathematics)
      Slides
  • 12:30 14:00
    Lunch 1h 30m
  • 14:00 15:30
    Astronomy and Astrophysics Room IV

    Room IV

    Uppsala University

    Astronomy & Astrophysics community is in EGEE since 2004 with two pilot applications now in EGEE-III. When the project started in 2008, five funded and eight unfunded partners joined the A&A cluster contributing with challenging applications and use-cases. To support these research groups, a number of A&A VOs are now in place in EGEE-III.

    The 5th User Forum is the last one before the end of EGEE-III and the advent of EGI. This A&A session therefore is a good occasion to deeply discuss and analyze the work done during these two years, the maturity achieved by the astronomical community with the Grid and the real perspectives for the continuation of the work undertaken in EGEE also in EGI. For this reason the featured application has been chosen as it will report about the whole activity carried out in the astrophysical cluster in these two years.
    The remaining oral contributions will report about the progress with Grid-related activities by research groups that already contributed to the cluster for several projects, namely the LOFAR radio telescope, the PAU survey (study the dark energy and its evidences such as the accelerated expansion of the Universe), the simulated data of the Planck mission (production of simulated data and discovery of non-gaussianity signatures using spherical wavelets) and the computing Grid used for the purposes of the Cerenkov Telescope Array.

    • 14:00
      LOFAR Archive Information System 15m
      The LOFAR radio telescope, consisting of several stations with antennas, will become operational in spring 2010. The signals are collected and correlated by a central supercomputer. The resulting data, several petabytes a year, will be stored in an archive, distributed over a number of partners. The LOFAR Archive Information System plays a crucial role in this long-term archive. It will keep track of the data stored in the archive, and allows for further processing of that data. The information system supports different computing and storage technologies, including the EGEE Grid.
      Speaker: Fokke Dijkstra (Donald Smits Center for Information Technology, University of Groningen, The Netherlands)
      Slides
    • 14:15
      Dark energy in the Grid: the PAU survey project 15m
      The PAU survey is intended to study the dark energy and its evidences such as the accelerated expansion of the Universe. With this aim, a large number of galaxies will be catalogued forming a map of the universe in large scale. High volumes of data need to be managed, processed and stored. The facilities of the PIC computing centre and the GRID environment will allow the challenging data management that the PAU survey requires.
      Speaker: Dr Nadia Tonello (PIC)
      Slides
    • 14:30
      CTACG - Cherenkov Telescope Array Computing Grid 15m
      Gamma-ray astronomy is one of the most active topics in astroparticle physics involving both particle physicists and astrophysicists leading to the design of new types of research infrastructures. The Cherenkov Telescope Array - CTA - is a proposed new project for ground based gamma-ray astronomy. This communication aims at providing a report of the most relevant activity carried out and in progress within the CTA consortium in EGEE and a view of perspectives and implications of ICT-based infrastructures such as the future EGI for the needs of a project like CTA.
      Speaker: Mrs Cecile Barbier (LAPP)
      Slides
    • 14:45
      The Grid for Astronomy and Astrophysics in Italy and Europe 25m
      The Astronomical and Astrophysical (A&A) community is extremely active concerning the use of the EGEE Grid infrastructure in Italy as well as in Europe. We briefly provide a summary of current AA Grid activities and we present selected compute and data intensive applications, which have been recently ported to Grid. Those applications are related either to large international key projects (as Planck ESA satellite) or to small-scale regional scientific activities. In particular, the AA community efforts toward the set up of the Italian NGI will be also presented.
      Speaker: Dr Giuliano Taffoni (INAF - IASFBO)
      Slides
    • 15:10
      Final discussion 20m
      Slides
  • 14:00 15:30
    Computer Science Room IX

    Room IX

    Uppsala University

    For the first time, an EGEE User Forum will feature a general Computer Science session. Indeed, many contributions come from Computer scientists that exploit the grid to run large-scale computations, for Machine Learning, Optimization, Game theory, and Complex networks. Phenomenology of the algorithms, theoretical results based on large experiments, and inter-disciplinary applications will be described, at various levels form mature tools to research-focused work. The Grid Observatory Cluster of EGEE-III will also present recent advances in exploration and analysis tools that are oriented towards the scientific view of grids. The session will be an opportunity to:

  • promote interaction amongst the computer science research community using or analyzing the grid, which is grounded on the above-mentioned scientific areas;
  • demonstrate examples of experimental work on grid analysis and optimization.

  • 14:00 15:30
    EGEE PMB (Closed)

    Phone conference details
    Dial-in numbers: +41227676000 (English, Main)
    Access codes: 0130606 (Leader)
    0140579 (Participant)
    Leader site: https://audioconf.cern.ch/call/0130606
    Participant site: https://audioconf.cern.ch/call/0140579

    Agenda
  • 14:00 15:30
    High Energy Physics Room X

    Room X

    Uppsala University

    The High Energy Physics (HEP) community has been both an early adopter of grid technology as well as a driving force behind EGEE and other grid projects. The Worldwide LHC Computing Grid (WLCG) builds on the infrastructures established by these projects and has been successfully used for LHC data taking, processing and analysis.

    The most important elements of the Grid infrastructure provided for the experiments will be presented during this session; the computing models of the experiments, the operation protocols used at the sites, and the end-user analysis infrastructures. In addition, other related communities are represented at this session such as Synchrotron Radiation Facilities. Therefore, the HEP session will be a forum where common aspects of Grid computing infrastructure used by different large communities will be discussed.

    The EGEE User Forums have always provided an ideal framework to share experiences between Grid users, and to trigger collaborations between different clusters. The topics that will be presented and discussed during this session will encourage the continuation of existing collaborations and hopefully initiate new ones.

    Introduction To The Session
  • 14:00 15:30
    Regional Activities, International Projects and Collaborations Auditorium

    Auditorium

    Uppsala University

    International grids cross national boundaries, spanning cultures, languages and technologies to create international resources and enable global science. With hundreds of grids running worldwide, there are many lessons to be learnt from international projects and collaborations, and this session brings together representatives of grids in Europe, Latin America, South Africa and the Asia-Pacific region. Key to European science in the future will be the European Strategy Forum on Research Infrastructures roadmap projects. This session explores integrating instrumentation with e-Infrastructures for the potential benefit of these projects, as well as presenting case studies of combining Virtual Research Environments (VREs) with grid technologies.

    Dissemination activities such as publications, events, social media and community-building websites help to bring user communities together. This session gathers together best practices based on the lessons learnt during the EGEE project. Also explored are the requirements of experimental scientists to steer, control and monitor instruments and sensors remotely. A prototype system developed by DORII will be presented. The D4Science-II project provides a number of VREs to address the needs of the Fisheries and Aquaculture community. Case studies discussed include the Aquamaps VRE that generates species distribution maps, the ICIS VRE’s repository of statistical datasets and the FCPPS VRE, which provides country profile report templates.

    SEE-GRID in South Eastern Europe will present improvements to the usability and services for its end users, including operational tools for monitoring, alerting, job tracking and security as well as application services such as advanced workflows, better data and file management and new applications platforms. EELA-2 in Latin America also presents its enhancements to the functionality of the gLite middleware, which has widened the number of potential applications and sped up the porting process.

    The Nordic Data Grid Facility’s experiences in bringing on board a new user community, the materials science virtual organisation are also presented. The main goal of the project was to enable non-LHC scientists to run their jobs on ARC enabled resources. On a wider scale, the South African National Grid Initiative aims to deploy a production-quality regional e-Science infrastructure for all South African researchers. Benefits are already being seen in the areas of physics, geomatics and bioinformatics and, through collaboration with the HP/UNESCO project, the seeds of the first regional African grid initiative. EUAsiaGrid brings together researchers from the Asia-Pacific region, and presents its progress in building, maintaining and developing e-Infrastructure within the region, together with a roadmap towards a sustainable and persistent multinational digital platform.

    Slides
  • 15:30 16:00
    Coffee break 30m
  • 16:00 18:00
    Demo Session 2 Aula

    Aula

    Uppsala University

    The User Forum demonstration session traditionally provides the opportunity to mature research work and scientific activities, exposing highly interactive and visually appealing characteristics, to come and present their latest achievements. This year 20 demonstrations have been selected to be presented in two demo slots. For this purpose, the demonstrations are split in two groups each one scheduled for a different day. The first group of 10 demonstrations will be on display during the first slot on Monday afternoon, in parallel with the welcome cocktail, whereas the second group will be presented on Wednesday afternoon. Both sessions will be run in parallel with the poster sessions on display in the same area in the venue.

    The demonstrations have been split into two logical groups based on their focus. Thus, on Monday the session will host demonstrations with more scientific focus; i.e. activities who will present scientific results achieved using a large scale Distributed Computing Infrastructures. On Wednesday, the interest will shift to more technical demonstrations, with the scheduled presentations focusing on advanced tools and technologies that facilitate the end-user/DCI interaction as well as on international projects and collaborations, which strive to extend and expand the current horizons of DCI infrastructure to novel technologies and paradigms. Some of these activities have been demonstrated in previous events, thus the attendees will have the opportunity to check upon their progress and be informed about latest results. Others, will be demonstrated for the first time.

    Finally as with previous events, the best demonstrations will be selected form the EGEE External Advisory Committee and the event attendees. The best demos will be announced and awarded during the event’s closing plenary on Thursday.

  • 16:00 19:00
    EGI Council (Closed) IV

    IV

    Uppsala University

  • 16:00 18:00
    Poster session Aula

    Aula

    Uppsala University

    This is the same poster session as in Monday. The same posters will be presented in parallel with Demo Session 2 this time. For a complete list of the posters see the Poster Session timetable for Monday evening.

  • Thursday, 15 April
  • Friday, 16 April