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Demonstrating the Biome-BGC CARBON workflow on Taverna Workbench

The workshop held at ELTE on June 6-7, 2013, showcased the Biome-BGC CARBON workflow using Taverna Workbench 2.4, a powerful open-source workflow management system. This system allows users to create and run ecological workflows, focusing on input and output management. Participants learned how to access workflows through the BioVeL Portal and myExperiment. The session provided hands-on demonstrations of the Biome-BGC model, illustrating its capability to simulate carbon, nitrogen, and water fluxes in terrestrial ecosystems through specific parameters and datasets.

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Demonstrating the Biome-BGC CARBON workflow on Taverna Workbench

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  1. Demonstratingthe Biome-BGC CARBON workflow on Taverna Workbench MS11 BioVeL workshop:Ecosystem functioning & valuation web services and workflows ELTE, 6-7 June, 2013 Eszter Lellei-Kovács MTA Centre for Ecological Research, Institute of Ecology and Botany, Vácrátót

  2. Taverna Workbench Taverna Workbench 2.4 – an open source workflow management system

  3. … for creating and running workflows …

  4. Inputs (red arrow) and outputs (green arrow) …

  5. Where to find workflows? BioVeL Portal

  6. Where to find workflows? myExperiment Download workflow: Biome-BGC CARBON test & demo version 1.0 annotated

  7. The workflow „Biome-BGC CARBON test & demo version 1.0 annotated” in TAVERNA

  8. Biome-BGCProjectsdatabase • Interactionpage • Beforerunning – Settingsforsimulation • Afterrunning – LookatUseddata and datasets • Prepared datasets for the simulation: • - met file: .mtc43; (spinup and normal running) • - epc for ecophysiological data; • - atmospheric CO2 concentration data • - N deposition data • - output definition • spinup and normal ini setup

  9. Demonstrating results Biome-BGC Projects database

  10. Demonstrating results Oensingen

  11. Thank You!

  12. Biome-BGC is a process-based biogeochemical model that can be used to simulate carbon, nitrogen and water fluxes of different terrestrial ecosystems. The BBGC CARBON executes a single simulation run, which consists of a so called spinup and normal simulation phases pipelined. The simulations require specific parameter inputs like: - spinup and normal initialization files (INI) - daily meteorology dataset file (METDATA) - ecophysiological constants file (EPC) - annual atmospheric CO2 concentration file (CO2 - optional) - annual nitrogen deposition file (NDEF - optional) - site/soil parameters - output control settings of Biome-BGC variables The Biome-BGC Projects database was developed to easy prepare, manage and share all of the above mentioned datasets and provide interaction with Taverna workflows. Learn more about BBGCDB at http://ecos.okologia.mta.hu/bbgcdb/.

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