A guided tour of asynchronous cellular automata

Research on asynchronous cellular automata has received a great amount of attention these last years and has turned to a thriving field. We survey the recent research that has been carried out on this topic and present a wide state of the art where computing and modelling issues are both represented.Comment: To appear in the Journal of Cellular Automat

Some resonances between Eastern thought and Integral Biomathics in the framework of the WLIMES formalism for modelling living systems

Forty-two years ago, Capra published “The Tao of Physics” (Capra, 1975). In this book (page 17) he writes: “The exploration of the atomic and subatomic world in the twentieth century has …. necessitated a radical revision of many of our basic concepts” and that, unlike ‘classical’ physics, the sub-atomic and quantum “modern physics” shows resonances with Eastern thoughts and “leads us to a view of the world which is very similar to the views held by mystics of all ages and traditions.“ This article stresses an analogous situation in biology with respect to a new theoretical approach for studying living systems, Integral Biomathics (IB), which also exhibits some resonances with Eastern thought. Stepping on earlier research in cybernetics1 and theoretical biology,2 IB has been developed since 2011 by over 100 scientists from a number of disciplines who have been exploring a substantial set of theoretical frameworks. From that effort, the need for a robust core model utilizing advanced mathematics and computation adequate for understanding the behavior of organisms as dynamic wholes was identified. At this end, the authors of this article have proposed WLIMES (Ehresmann and Simeonov, 2012), a formal theory for modeling living systems integrating both the Memory Evolutive Systems (Ehresmann and Vanbremeersch, 2007) and the Wandering Logic Intelligence (Simeonov, 2002b). Its principles will be recalled here with respect to their resonances to Eastern thought

A Kleene theorem and model checking algorithms for existentially bounded communicating automata

AbstractThe behavior of a network of communicating automata is called existentially bounded if communication events can be scheduled in such a way that the number of messages in transit is always bounded by a value that depends only on the machine, not the run itself. We show a Kleene theorem for existentially bounded communicating automata, namely the equivalence between communicating automata, globally cooperative compositional message sequence graphs, and monadic second order logic. Our characterization extends results for universally bounded models, where for each and every possible scheduling of communication events, the number of messages in transit is uniformly bounded. As a consequence, we give solutions in spirit of Madhusudan (2001) for various model checking problems on networks of communicating automata that satisfy our optimistic restriction

A multiset-based model of synchronizing agents: Computability and robustness

AbstractWe introduce a modelling framework and computational paradigm called Colonies of Synchronizing Agents (CSAs) inspired by the intracellular and intercellular mechanisms in biological tissues. The model is based on a multiset of agents in a common environment. Each agent has a local state stored in the form of a multiset of atomic objects, which is updated by global multiset rewriting rules either independently or synchronously with another agent. We first define the model then study its computational power, considering trade-offs between internal rewriting (intracellular mechanisms) and synchronization between agents (intercellular mechanisms). We also investigate dynamic properties of CSAs, including behavioural robustness (ability to generate a core behaviour despite agent loss or rule failure) and safety of synchronization (ability of an agent to synchronize with some other agent whenever needed)

Basic notions of universal algebra for language theory and graph grammars

AbstractThis paper reviews the basic properties of the equational and recognizable subsets of general algebras; these sets can be seen as generalizations of the context-free and regular languages, respectively. This approach, based on Universal Algebra, facilitates the development of the theory of formal languages so as to include the description of sets of finite trees, finite graphs, finite hypergraphs, tuples of words, partially commutative words (also called traces) and other similar finite objects

Modeling Time in Computing: A Taxonomy and a Comparative Survey

The increasing relevance of areas such as real-time and embedded systems, pervasive computing, hybrid systems control, and biological and social systems modeling is bringing a growing attention to the temporal aspects of computing, not only in the computer science domain, but also in more traditional fields of engineering. This article surveys various approaches to the formal modeling and analysis of the temporal features of computer-based systems, with a level of detail that is suitable also for non-specialists. In doing so, it provides a unifying framework, rather than just a comprehensive list of formalisms. The paper first lays out some key dimensions along which the various formalisms can be evaluated and compared. Then, a significant sample of formalisms for time modeling in computing are presented and discussed according to these dimensions. The adopted perspective is, to some extent, historical, going from "traditional" models and formalisms to more modern ones.Comment: More typos fixe