ICIS - The International Crop Information System - A Workshop Report Jörn Vorwald Institute of Plant Genetics and Crop Plant Research Gatersleben Corrensstraße 3, D-06466 Gatersleben, http://www.ipk-gatersleben.de, vorwald@ipk-gatersleben.de

Outline What is ICIS? What is ICIS? What is new in ICIS? What is new in ICIS? What is ICIS? What is ICIS?

What is ICIS?

What is ICIS? International Crop Information System Graham McLaren, IRRI: It’s a community – an alliance of partners collaborating on development and deployment of crop information systems The goal is to pool intellectual and physical resources to create a generic crop information platform Jörn Vorwald: ICIS Workshop 2005 report - What is ICIS?

What is ICIS and what it is not (yet)? ICIS homepage: a database system for management and integration of global information on genetic resources and crop improvement allows ambiguous germplasm identification, tracing pedigree information, integration between genetic resources, breeding, characterisation, evaluation, and utilisation of data being developed by genetic resource specialists, crop scientists, and information technicians implemented separately for each crop It is not A gene bank information system A plant data warehouse Jörn Vorwald: ICIS Workshop 2005 report - What is ICIS?

ICIS partners (by G. McLaren) Developers CIMMYT, ICARDA, IRRI Grain Biotech Australia VIDA SPARC Nunhems University of Queensland Users MARDI East West Seed Co. Bayer Cropscience/Bioscience University of Agricultural Sciences, Bangalore Philrice, Philipines CNRRI, China Ubon RRC, Thailand SARSBN CIAT IITA ... Alliances The Generation Challenge Program SINGER Germinate Gramene Phenotype Ontology Consortium IRFGC Jörn Vorwald: ICIS Workshop 2005 report - What is ICIS?

Where is IPK? First contact in 2002: visit at the developer’s workshop Is ICIS a useful tool for IPK gene bank? Decision in summer 2002 after test installation: It is not. Pros International developer community Successful implementations around the world Flexible and easy C+E data input and access Contras: No gene bank module Focused on single crops Redundant data management Problems with installation Today: Was it the wrong decision? ‘Virtual’ enlargement of development capacities Open source project with flexible database layer Gene bank module is coming up Jörn Vorwald: ICIS Workshop 2005 report - What is ICIS?

What is new in ICIS?

Software development of ICIS (by A. Cosico & A. Portugal, IRRI) Enhancement of existing ICIS Applications SetGen Workbook Browse GMSSearch Retriever ICISForms Implementation of the Invetory Tracker Initial implementation of Genetic Resource Information Management System Porting of the ICIS32.dll in .NET to interoperate with web services Jörn Vorwald: ICIS Workshop 2005 report - What is new in ICIS?

New Platform (by A. Cosico & A. Portugal, IRRI) ICIS4  ICIS5/Java Reimplementation of some major components Moving core ICIS APIs (GMS/DMS) from client to server Integrating a high-performance object-oriented persistence framework Implementing web services (SOAP/XML) for programming language-agnostic access to core APIs and integration with existing Delphi, VB, FORTRAN, etc. front ends Developing a Web-based portal for browser access Code management using GForge/CVS Jörn Vorwald: ICIS Workshop 2005 report - What is new in ICIS?

ICISForms (by M. A. Sallan, IRRI) GEMS (by T. Metz, IRRI) New modules ICISForms (by M. A. Sallan, IRRI) creates a GUI on the fly GEMS (by T. Metz, IRRI) manages genotype data SQL code generator for queries on the fly towards data warehouse functionality Marker Assisted Selection (by F. Clarke, SPARC) more a need: a tool for support ICIS QU-GENE Link (by I. DeLacy, UQ) just another need: integrating ICIS with analysis tools Jörn Vorwald: ICIS Workshop 2005 report - What is new in ICIS?

Location data quality in ICIS (by I. Mukema, IRRI) Other reports I Location data quality in ICIS (by I. Mukema, IRRI) data quality dimensions modeled IRGCIS migration to ICIS (by R. Herrera, IRRI) IRRI‘s GBIS with new functions Replacing Oracle based system by open source due to costs DIVA-GIS (by R. Simon, CIP) Tool for PGR management – introducing GIS functionality ICIS connectivity planned for 2005 Data abstraction I (by J. Vorwald, IPK) introducing object-oriented approach to RDBMS Jörn Vorwald: ICIS Workshop 2005 report - What is new in ICIS?

Data abstraction II (by J. Vorwald, IPK) Other reports II Data abstraction II (by J. Vorwald, IPK) towards a PGR ontology Managing pedigrees (by S. Micallef, UQ / S. Yates, SPARC / G. McLaren, IRRI) problems with data update Database platform experiences (by A. Portugal, IRRI / C. aan den Boom & J. Heber, Nunhems / T. Metz, IRRI) MS-Access, MySQL, Oracle, PostgreSQL Data abstraction III (by R. Bruskievich, IRRI / I. DeLacy, UQ) data management concepts: global identifiers, ontology & domain models ontology of plant genealogy Jörn Vorwald: ICIS Workshop 2005 report - What is new in ICIS?

What is ICIS?

What ICIS is and what will it be? An open source community and project A gene bank information system A plant data warehouse Jörn Vorwald: ICIS Workshop 2005 report - What is ICIS?

Why should we deal with ICIS? IPK as part of plant resource research community A lot of benefits from collaboration developments and solutions ‘virtual’ enlargement of development capacities A little bit to give visualisation and database representation of graphs? for pedigrees (represented as trees, but real graphs) query builder – database and Java implementation a lot of theory: contributions to ontologies and data quality experiences: data migration, 3-tier-software- architecture Jörn Vorwald: ICIS Workshop 2005 report - Summary

ICIS http://www.icis.cgiar.org http://cropwiki.irri.org/icis/index.php/Main_Page http://cropforge.irri.org/

Thank you End