1. Katmandoo 2 Bioscience Data Management System Katmandoo Team

2. NSW DPI Katmandoo 2 © State of New South Wales, Department of Primary Industries and State of Queensland, Department of Primary Industries and Fisheries Installation Stand-alone –Windows operating systems –Microsoft.NET Framework 2.0 Service Pack 1 (Free)Microsoft.NET Framework 2.0 Service Pack 1 –Use MSDE or SQL 2005 Express or MySQL 5.1 (Free)MSDE SQL 2005 ExpressMySQL 5.1 –Microsoft Excel 97-2007 Client-server (Microsoft database) –Client: Windows operating systems Microsoft.NET Framework 2.0 Service Pack 1Microsoft.NET Framework 2.0 Service Pack 1 –Server: SQL Server 2000 or 2005 Client-server (MySQL database) –Client: Windows operating systems Microsoft.NET Framework 2.0 Service Pack 1Microsoft.NET Framework 2.0 Service Pack 1 –MySQL 5.1 (on any operating system supported by MySQL)MySQL 5.1 (on any operating system supported by MySQL)

3. NSW DPI Katmandoo 2 © State of New South Wales, Department of Primary Industries and State of Queensland, Department of Primary Industries and Fisheries System Design Windows operating systems with Microsoft.NET Framework 2.0 Service Pack 1 Microsoft.NET Framework 2.0 Service Pack 1 Windows/Windows Server with SQL Server or MySQL database Unix operating systems with MySQL databaseUnix operating systems with MySQL database

4. NSW DPI Katmandoo 2 © State of New South Wales, Department of Primary Industries and State of Queensland, Department of Primary Industries and Fisheries Database Relational database structure that can be extended using Virtual ColumnVirtual Column Support multiple databases –Clone existing database for new project Use Sub-system to virtually partition data within a single database. eg Plant Agronomy database can have following (or many) sub-systems: –Lupin Agronomy –Wheat Agronomy

5. NSW DPI Katmandoo 2 © State of New South Wales, Department of Primary Industries and State of Queensland, Department of Primary Industries and Fisheries Features Freely available Transaction-based multi-user system User friendly standard User Interface Context-sensitive comprehensive help Highly configurable security framework Configurable table meta-data (column name, caption, description, rule)

6. NSW DPI Katmandoo 2 © State of New South Wales, Department of Primary Industries and State of Queensland, Department of Primary Industries and Fisheries Features Export data into Excel, CSV (Comma Separated Value), XML (Extensible Markup Language) and Microsoft Access. Import data from Excel or CSV File, with ability to map columns of source file with columns in database. Powerful filtering of results Quick Search

7. NSW DPI Katmandoo 2 © State of New South Wales, Department of Primary Industries and State of Queensland, Department of Primary Industries and Fisheries Modules Phenotypic –Public released on November 2008. Marker –Beta version to be released on June 2009 Pedigree –Beta version to be released on June 2009

8. NSW DPI Katmandoo 2 © State of New South Wales, Department of Primary Industries and State of Queensland, Department of Primary Industries and Fisheries Phenotypic Module

9. NSW DPI Katmandoo 2 © State of New South Wales, Department of Primary Industries and State of Queensland, Department of Primary Industries and Fisheries Conceptual Model

10. NSW DPI Katmandoo 2 © State of New South Wales, Department of Primary Industries and State of Queensland, Department of Primary Industries and Fisheries What can be stored? Contact and Organisation (responsible for trial) –site manager, trial manager, operator recording raw data or analyst responsible for analysing data. Site (where the trial was done) –site manager, rainfall or other annual information applicable to the site Genotype (cultivar, variety, pedigree) –selection history, pedigree information –characterisation data –multiple aliases/synonyms

11. NSW DPI Katmandoo 2 © State of New South Wales, Department of Primary Industries and State of Queensland, Department of Primary Industries and Fisheries What can be stored? Trial (single or multi-phase experiment) –detail info of each trial –configurable trial design parameters –factorial treatment information (optional) Raw data (recorded on each trial unit) –one or repeat measure of trait –unlimited level of sub-sampling –operator and raw data recorded date Analysed data –single site and multi-site analysis

12. NSW DPI Katmandoo 2 © State of New South Wales, Department of Primary Industries and State of Queensland, Department of Primary Industries and Fisheries What can be stored? Virtual column and Trait –can be added as required –validation rule (range) is Sub-system specific –aliases/synonyms User Permission –customisable system group with different level of permission for tables and genotypes –each user belongs to one or more system group

13. NSW DPI Katmandoo 2 © State of New South Wales, Department of Primary Industries and State of Queensland, Department of Primary Industries and Fisheries Sub-system Navigator Main-form datagrid Sub-form/s Navigator Node Main-form Filter Menu Status bar Main-form Toolbars Shortcut Toolbar Main-form heading

14. NSW DPI Katmandoo 2 © State of New South Wales, Department of Primary Industries and State of Queensland, Department of Primary Industries and Fisheries Demonstration Login and Change Current Database Login Change Current Database Start-up Form Site and Site Year Site Site Year Genus and Genotype Genus Genotype –Export GenotypeExport Genotype Trial Trait Virtual Column (Unit Position)

15. NSW DPI Katmandoo 2 © State of New South Wales, Department of Primary Industries and State of Queensland, Department of Primary Industries and Fisheries Demonstration Create Trial Design Using DiGGer Import Trial Design Import Trial Design Export Trial Design of selected Trials Export Trial Design Report Export Raw Data (Sample Measurement) Import Raw Data (Sample Measurement) Glossary

16. NSW DPI Katmandoo 2 © State of New South Wales, Department of Primary Industries and State of Queensland, Department of Primary Industries and Fisheries Website Forum: http://www.katmandoo.org/forum Online Help: http://www.katmandoo.org/Help/TOC.htm

17. NSW DPI Katmandoo 2 © State of New South Wales, Department of Primary Industries and State of Queensland, Department of Primary Industries and Fisheries Acknowledgement Team Member –Brian Cullis, David Butler, Avishesh Shrestha, David Rodgers and Paul McGowan Contributors: –Arthur Gilmour, Neil Coombes, Damian Collins, Chris Lisle, Peter Martin, Sharon Nielsen, David Luckett NSW DPI and QLD DPI&F colleague: for their support on development of Katmandoo

18. NSW DPI Katmandoo 2 © State of New South Wales, Department of Primary Industries and State of Queensland, Department of Primary Industries and Fisheries Data Validation in a Sub- system Setup Form (UI) Import Form (UI) User Process Component Permission Data typeData type, Invalid charactersInvalid characters Business Rule Component Data Access Component Database Data Integrity Permission Validation Rule KeysKeys: Primary, Alternate & Foreign Referential Integrity Validate Range (XL) Permission

19. NSW DPI Katmandoo 2 © State of New South Wales, Department of Primary Industries and State of Queensland, Department of Primary Industries and Fisheries Installation Package Microsoft.NET Framework 2.0 Service Pack 1 –Download and install separately Installation Package –Katmandoo2 libraries and configuration files –SQL Express User Name and Password: sa / katmandoo2005 –Katmandoo2 and KatmandooDemo databases User Name and Password : dba / rescue12 Also contains –Demo Data spreadsheets Future Updates –Visit Katmandoo ForumVisit Katmandoo Forum