New Communities The Virtual Physiological Human Use Case

New Communities: The Virtual Physiological Human Use Case Stefan Zasada University College London stefan. zasada@ucl. ac. uk

Federating Infrastructures • • Many applications are now workflows of operations that require compute resources of different scales + data Workflow components of different sizes should be allocated to appropriate resources: clusters or supercomputers We need to be able to transparently interoperate across EGI, PRACE, EUDAT & other infrastructures A working group has been established to interoperate across EUDAT, EGI and PRACE + + We’re working to bring a use cases from VPH to help develop this collaboration

EUDAT Community-oriented services • • Simple Data Acces and upload Long term preservation Shared workspaces Execution and workflow (data mining, etc. ) • Joint metadata and data visibility Core services are building blocks of EUDAT‘s Common Data Infrastructure mainly included on bottom layer of data services Enabling services (making use of existing services where possible • Persistent identifier service (EPIC, Data. Cite) • Federated AAI service • Network Services • Monitoring and accounting http: //eudat. eu/ 3

EGI • European – Over 35 countries • Grid – Secure sharing • Infrastructure – Computers – Data – Instruments – …. and beyond!! Established to & successful in finding the Higgs Boson EGI-In. SPIRE RI-261323 www. egi. eu

PRACE The Partnership for Advanced Computing in Europe is the European HPC Research Infrastructure • PRACE enables world-class science through large scale simulations • PRACE provides HPC services on leading edge capability systems on a diverse set of architectures • PRACE operates up to six Tier-0 systems as a single entity including user and application support • PRACE offers its resources through a single pan-European peer review process

Virtual Physiological Human (VPH) • € 207 M initiative in EU-FP 7 • Aims • Enable collaborative investigation of the human body across all relevant scales. • Introduce multiscale methodologies into medical and clinical research • The VPH framework is: • Descriptive • Integrative • Predictive Organism Organ Tissue Cell Organelle Interaction Protein Cell Signals Transcription Gene Molecule VPH DEISA Virtual Community established in collaboration with Hermann Lederer, MPS RZG 6

Virtual Physiological Human • 42 projects: 1 No. E + IPs, STREPS + CAs. • New projects to be funded under Call 9 “a methodological and technological framework that, once established, will enable collaborative investigation of the human body as a single complex system. . . ” http: //www. vph-noe. eu Networking No. E 7

The Virtual Imaging Platform - VIP ● ● Multi-modality medical image simulators: MRI, US, CT, and PET. Simulators described as workflows. Geometric definition and physical parameters such as proton density, echogenicity, radioactivity, chemical composition. Ontologies (ongoing work by INRIA Rennes). ● ● September 18 th-20 th, 2012. London, UK European Grid Infrastructure (EGI). Biomed Virtual Organization. VIP for VPH - CNRS and UCL 8

Exemplar Project – VIP for VPH ● 250 registered users, from 25 countries. ● Most used portal certificate in EGI. https: //wiki. egi. eu/wiki/EGI_robot_certificate_users ● Consummed 379 CPU years from. January 2011 to August 2012. http: //accounting. egi. eu VIP for VPH System Architecture September 18 th-20 th, 2012. London, UK VIP for VPH - CNRS and UCL 9

Interface with the VPH Toolkit MOTEUR http: //modalis. i 3 s. unice. fr/softwares/moteu r/ ● Generic Application Service Wrapper (GASW) enables to access several Distributed Computing Infrastructures. http: //vip. creatis. insa-lyon. fr: 9002/projects/gasw ● The GASW AHE plug-in enables GASW to access AHE resources. - Launch and monitor jobs. - Data transfer. http: //vip. creatis. insa-lyon. fr: 9002/projects/ahe VIP for VPH - System Architecture September 18 th-20 th, 2012. London, UK VIP for VPH - CNRS and UCL 10

Interface with the VPH Toolkit The Application Hosting Environment http: //www. realitygrid. org/AH E/ ● ● ● Part of the VPH Tool. Kit, freely available to the VPH community. Interfaces to back-end middlewares (i. e. Globus 2/4, Unicore 6) Manages submission and monitoring of jobs as well as data transfer. VIP for VPH - System Architecture September 18 th-20 th, 2012. London, UK VIP for VPH - CNRS and UCL 11

VIP for VPH in action Use Case Scenario ● A heavy MRI simulation Application SIMRI – 3 D MRI simulator Software based on the Bloch equation. Website http: //www. simri. org Main Solution to linear differential Algorithm equation. (ODE solver). VIP for VPH - System Architecture September 18 th-20 th, 2012. London, UK Each model is 50 -100 MB in size, and generates the same amount of output data VIP for VPH - CNRS and UCL 12

Use case scenario – EP 9: VIP for VPH ● Data transfer from the EGI data storage system to the PRACE HPC resource. September 18 th-20 th, 2012. London, UK VIP for VPH - CNRS and UCL 13

EUDAT/EGI/PRACE • VIP 4 VPH already makes use of EGI and PRACE resources – Uses MOTEUR workflow engine + other infrastructure components – Application Hosting Environment provides bridge into PRACE • We need to involve EUDAT: – Data should be moved from current VIP server to EUDAT when PRACE resources are used & resulting data ingested back – Grid. FTP interface a requirement to interoperated with existing infrastructure

Proposed architecture ● ● Authentication: 1 VO(MS) should be supported on EUDAT. Otherwise, application switches (VOMS) proxies (possible but not suitable). Application could merge 3. a and 3. b in a 3 rd-party transfer

Acknowledgements Tristan Glatard William Romero Giuseppe Fiameni Tiziana Ferrari Johannes Reetz Derek Groen + many others… 16