The Attributed Pi Calculus with Priorities

International audienceWe present the attributed $\pi$-calculus for modeling concurrent systems with interaction constraints depending on the values of attributes of processes. The $\pi$-calculus serves as a constraint language underlying the $\pi$-calculus. Interaction constraints subsume priorities, by which to express global aspects of populations. We present a nondeterministic and a stochastic semantics for the attributed $\pi$-calculus. We show how to encode the $\pi$-calculus with priorities and polyadic synchronization $\pi$@ and thus dynamic compartments, as well as the stochastic $\pi$-calculus with concurrent objects spico. We illustrate the usefulness of the attributed $\pi$-calculus for modeling biological systems at two particular examples: Euglena’s spatial movement in phototaxis, and cooperative protein binding in gene regulation of bacteriophage lambda. Furthermore, population-based model is supported beside individual-based modeling. A stochastic simulation algorithm for the attributed $\pi$-calculus is derived from its stochastic semantics. We have implemented a simulator and present experimental results, that confirm the practical relevance of our approach

Priorities Without Priorities: Representing Preemption in Psi-Calculi

Psi-calculi is a parametric framework for extensions of the pi-calculus with data terms and arbitrary logics. In this framework there is no direct way to represent action priorities, where an action can execute only if all other enabled actions have lower priority. We here demonstrate that the psi-calculi parameters can be chosen such that the effect of action priorities can be encoded. To accomplish this we define an extension of psi-calculi with action priorities, and show that for every calculus in the extended framework there is a corresponding ordinary psi-calculus, without priorities, and a translation between them that satisfies strong operational correspondence. This is a significantly stronger result than for most encodings between process calculi in the literature. We also formally prove in Nominal Isabelle that the standard congruence and structural laws about strong bisimulation hold in psi-calculi extended with priorities.Comment: In Proceedings EXPRESS/SOS 2014, arXiv:1408.127

Centralized vs distributed communication scheme on switched ethernet for embedded military applications

Current military communication network is a generation old and is no longer effective in meeting the emerging requirements imposed by the future embedded military applications. Therefore, a new interconnection system is needed to overcome these limitations. Two new communication networks based upon Full Duplex Switched Ethernet are presented herein in this aim. The first one uses a distributed communication scheme where equipments can emit their data simultaneously, which clearly improves system’s throughput and flexibility. However, migrating all existing applications into a compliant form could be an expensive step. To avoid this process, the second proposal consists in keeping the current centralized communication scheme. Our objective is to assess and compare the real time guarantees that each proposal can offer. The paper includes the functional description of each proposed communication network and a military avionic application to highlight proposals ability to support the required time constrained communications

Dynamic Compartments in the Imperative Pi Calculus

International audienceDynamic compartments with mutable configurations and variable volumes are of basic interest for the stochastic modeling of biochemistry in cells. We propose a new language to express dynamic compartments that we call the imperative π-calculus. It is obtained from the attributed π-calculus by adding imperative assignment operations to a global store. Previous approaches to dynamic compartments are improved in flexibility or efficiency. This is illustrated by an appropriate model of osmosis and a correct encoding of BioAmbients

Modeling and Reasoning over Distributed Systems using Aspect-Oriented Graph Grammars

Aspect-orientation is a relatively new paradigm that introduces abstractions to modularize the implementation of system-wide policies. It is based on a composition operation, called aspect weaving, that implicitly modifies a base system by performing related changes within the system modules. Aspect-oriented graph grammars (AOGG) extend the classic graph grammar formalism by defining aspects as sets of rule-based modifications over a base graph grammar. Despite the advantages of aspect-oriented concepts regarding modularity, the implicit nature of the aspect weaving operation may also introduce issues when reasoning about the system behavior. Since in AOGGs aspect weaving is characterized by means of rule-based rewriting, we can overcome these problems by using known analysis techniques from the graph transformation literature to study aspect composition. In this paper, we present a case study of a distributed client-server system with global policies, modeled as an aspect-oriented graph grammar, and discuss how to use the AGG tool to identify potential conflicts in aspect weaving

Biochemical Reaction Rules with Constraints

International audienceWe propose React(C), an expressive programming language for stochastic modeling and simulation in systems biology, that is based on biochemical reactions with constraints. We prove that React(C) can express the stochastic pi-calculus, in contrast to previous rule-based programming languages, and further illustrate the high expressiveness of React(C). We present a stochastic simulator for React(C) independently of the choice of the constraint language C. Our simulator must decide for a given reaction rule whether it can be applied to the current biochemical solution. We show that this decision problem is NP-complete for arbitrary constraint systems C, and that it can be solved in polynomial time for rules of bounded arity. In practice, we propose to solve this problem by constraint programming