FOODSIM'2014, June 23-25, 2014, Oceanopolis, Brest, France, Tutorials


Conference Tutorials

ReISCOP: a software to simulate biological behaviour

Mr Gireg Desmeulles
European Center of Virtual Reality
Brest, France
Tel: +33.2.9805.8953+33.2.9805.8953


Cre-actors, modeling interface, simulation engine, backup files, conceptual biological models... all of these must be compatible. All these elements have to speak the same language and have to use the same concepts. In this purpose, we had to build a metamodel suitable for the in virtuo experience.

To model our knowledge as a society of models living in our virtual worlds, The multi-interaction conceptual framework, based on the rei fication of interactions, is built upon the concepts of autonomy and structural coupling. It can be seen as a dual form of Individual Based Models (IBM). ReISCOP [Desmeulles et al., 2009] is a modeling metamodel that lies on the multi-interaction principle.

In an interdisciplinary context, ReISCOP makes it possible to build dynamic models of complex biological systems thanks to multi-interaction paradigm. Such models can integrate di fferent formalisms and may modify themselves or be modifi ed by a user during the simulation run. Recent interfaces that we propose can be manipulated by the experimenter people who are not computer scientist or programmer. We aim to quickly o er a free online tool to perform quick design of bacteria populations or compartment-based toxicological models. Of course, simulations conducted in VR are less efficient in terms of computation time, but we see them as a first step collaborate around a viewable interdisciplinary model. These tools contribute to the implementation of the experiment in virtuo.

Proposal of microbiological criteria and risk-based metrics for specific foods and risks

Antonio Valero
Department of Food Science and Technology,
Ed. Darwin-Anexo,
Campus de Rabanales s/n,
University of Córdoba,
Cordoba, Spain


One of the main objectives of the improvement of food legislation lies on assuring an appropriate level of protection for human health, as been proposed in the Regulation CE No. 178/2002 relative to food safety policy and risk analysis. However, the increasing global trade and exporting of foods from one country to another makes necessary the harmonization of food safety control procedures. To date, due to the lack of uniformity in the development of risk assessment protocols, integrated policies in food safety has not been established yet. In relation to risk management, different risk-based metrics has been proposed as Performance Objectives (PO) or Food Safety Objectives (FSO) which act both as a link between public health measures and microbial limits set in the food industry. To correctly apply these concepts and to carry out accurate proposals on microbiological criteria, statistical distributions of the specific pathogens within a food matrix must be previously known and/or inferred. Likewise, the development of more sensible analytical techniques undoubtedly helps to detect lower contamination levels in food lot.

During the presentation, different strategies to apply mathematical models for specific foods and hazards together with derivation of PO and FSO will be described, with the aid of simulation tools and on-line software. Practical examples of sampling procedures to be applied in food industry will be shown in order to establish more effective food safety policies.

Extensive Fish Farm Simulation

Pascal Ballet
University of Brest
Brest, France
Tel: +33 (0)2 98 01 80 61
Fax: +33 (0)6 28 63 83 81


Observations and studies of living systems generate many data that are ranging from molecular, via cellular, to multicellular scales. To be exploited, these raw information must be organised and computationally treated to build explanatory and predictive models that can be used to quantitatively simulate observed life processes. However, this is difficult because of the diversity of living matters, shapes, mechanisms, sizes, interactions and times. The simulator presented here, entitled NetBioDyn, overcomes some of these problems by using simple individual based models in an unified software environment. The treated example deals with the simulation of an extensive aquaculture farm simulation. The farm is based on an auto-regulated ecosystem implying alga, shrimps, fishes and birds

The aim of this tutorial is to simulate this farm by using an individual based model with NetBioDyn. An aquaculture farm located in Spain produces 1,500 tons of sea fishes and shrimps per year. The farm is based on an auto-regulated ecosystem implying alga, shrimps, fishes and birds.

The software used - NetBioDyn can be downloaded here

View the tutorial here
and some online vids here