Generalized Communicating P Systems Working in Fair Sequential Model

In this article we consider a new derivation mode for generalized communicating P systems (GCPS) corresponding to the functioning of population protocols (PP) and based on the sequential derivation mode and a fairness condition. We show that PP can be seen as a particular variant of GCPS. We also consider a particular stochastic evolution satisfying the fairness condition and obtain that it corresponds to the run of a Gillespie's SSA. This permits to further describe the dynamics of GCPS by a system of ODEs when the population size goes to the infinity.Comment: Presented at MeCBIC 201

Process Algebras

Process Algebras are mathematically rigorous languages with well defined semantics that permit describing and verifying properties of concurrent communicating systems. They can be seen as models of processes, regarded as agents that act and interact continuously with other similar agents and with their common environment. The agents may be real-world objects (even people), or they may be artifacts, embodied perhaps in computer hardware or software systems. Many different approaches (operational, denotational, algebraic) are taken for describing the meaning of processes. However, the operational approach is the reference one. By relying on the so called Structural Operational Semantics (SOS), labelled transition systems are built and composed by using the different operators of the many different process algebras. Behavioral equivalences are used to abstract from unwanted details and identify those systems that react similarly to external experiments

On a workflow model based on generalized communicating P systems

This paper introduces a new formal mathematical model for investigating workflows from dynamical and behavioural point of view. The model is designed on the basis of a special variant of the biology-inspired formal computational model called membrane systems, where the jobs or services are represented by membrane objects whose behaviour is defined by communication and generalization rules. The model supports running computations in a massive parallel manner, which makes it ideal to model high throughput workflow interpreters. Among the variants introduced in the literature, we have selected the Generalized Communicating P Systems, as it focuses on the communication among the membranes.Most of the workflow languages, based on different formal models like Petri nets or Communicating Sequential Processes, support several predefined structures – namely workflow patterns – to control the workflow interpretation such as conditions, loops etc. In this paper we show how these patterns are adapted into the membrane environment which, taking into account that membrane systems can be used to study complex dynamic systems’ runtime behaviour, makes this model a relevant alternative for the current model

Interaction and observation: categorical semantics of reactive systems trough dialgebras

We use dialgebras, generalising both algebras and coalgebras, as a complement of the standard coalgebraic framework, aimed at describing the semantics of an interactive system by the means of reaction rules. In this model, interaction is built-in, and semantic equivalence arises from it, instead of being determined by a (possibly difficult) understanding of the side effects of a component in isolation. Behavioural equivalence in dialgebras is determined by how a given process interacts with the others, and the obtained observations. We develop a technique to inter-define categories of dialgebras of different functors, that in particular permits us to compare a standard coalgebraic semantics and its dialgebraic counterpart. We exemplify the framework using the CCS and the pi-calculus. Remarkably, the dialgebra giving semantics to the pi-calculus does not require the use of presheaf categories

A test generation framework for quiescent real-time systems

We present an extension of Tretmans theory and algorithm for test generation for input-output transition systems to real-time systems. Our treatment is based on an operational interpretation of the notion of quiescence in the context of real-time behaviour. This gives rise to a family of implementation relations parameterized by observation durations for quiescence. We define a nondeterministic (parameterized) test generation algorithm that generates test cases that are sound with respect to the corresponding implementation relation. Also, the test generation is exhaustive in the sense that for each non-conforming implementation a test case can be generated that detects the non-conformance

Process Calculi Abstractions for Biology

Several approaches have been proposed to model biological systems by means of the formal techniques and tools available in computer science. To mention just a few of them, some representations are inspired by Petri Nets theory, and some other by stochastic processes. A most recent approach consists in interpreting the living entities as terms of process calculi where the behavior of the represented systems can be inferred by applying syntax-driven rules. A comprehensive picture of the state of the art of the process calculi approach to biological modeling is still missing. This paper goes in the direction of providing such a picture by presenting a comparative survey of the process calculi that have been used and proposed to describe the behavior of living entities. This is the preliminary version of a paper that was published in Algorithmic Bioprocesses. The original publication is available at http://www.springer.com/computer/foundations/book/978-3-540-88868-

Formal Modeling of Connectionism using Concurrency Theory, an Approach Based on Automata and Model Checking

This paper illustrates a framework for applying formal methods techniques, which are symbolic in nature, to specifying and verifying neural networks, which are sub-symbolic in nature. The paper describes a communicating automata [Bowman & Gomez, 2006] model of neural networks. We also implement the model using timed automata [Alur & Dill, 1994] and then undertake a verification of these models using the model checker Uppaal [Pettersson, 2000] in order to evaluate the performance of learning algorithms. This paper also presents discussion of a number of broad issues concerning cognitive neuroscience and the debate as to whether symbolic processing or connectionism is a suitable representation of cognitive systems. Additionally, the issue of integrating symbolic techniques, such as formal methods, with complex neural networks is discussed. We then argue that symbolic verifications may give theoretically well-founded ways to evaluate and justify neural learning systems in the field of both theoretical research and real world applications

An interactive semantics of logic programming

We apply to logic programming some recently emerging ideas from the field of reduction-based communicating systems, with the aim of giving evidence of the hidden interactions and the coordination mechanisms that rule the operational machinery of such a programming paradigm. The semantic framework we have chosen for presenting our results is tile logic, which has the advantage of allowing a uniform treatment of goals and observations and of applying abstract categorical tools for proving the results. As main contributions, we mention the finitary presentation of abstract unification, and a concurrent and coordinated abstract semantics consistent with the most common semantics of logic programming. Moreover, the compositionality of the tile semantics is guaranteed by standard results, as it reduces to check that the tile systems associated to logic programs enjoy the tile decomposition property. An extension of the approach for handling constraint systems is also discussed.Comment: 42 pages, 24 figure, 3 tables, to appear in the CUP journal of Theory and Practice of Logic Programmin