The Largest Respectful Function

Respectful functions were introduced by Sangiorgi as a compositional tool to formulate short and clear bisimulation proofs. Usually, the larger the respectful function, the easier the bisimulation proof. In particular the largest respectful function, defined as the pointwise union of all respectful functions, has been shown to be very useful. We here provide an explicit and constructive characterization of it

No value restriction is needed for algebraic effects and handlers

We present a straightforward, sound Hindley-Milner polymorphic type system for algebraic effects and handlers in a call-by-value calculus, which allows type variable generalisation of arbitrary computations, not just values. This result is surprising. On the one hand, the soundness of unrestricted call-by-value Hindley-Milner polymorphism is known to fail in the presence of computational effects such as reference cells and continuations. On the other hand, many programming examples can be recast to use effect handlers instead of these effects. Analysing the expressive power of effect handlers with respect to state effects, we claim handlers cannot express reference cells, and show they can simulate dynamically scoped state

Coarse-grained brownian dynamics simulation of rule-based models

International audienceStudying spatial effects in signal transduction, such as co-localization along scaffold molecules, comes at a cost of complexity. In this paper, we propose a coarse-grained, particle-based spatial simulator, suited for large signal transduction models. Our approach is to combine the particle-based reaction and diffusion method, and (non-spatial) rule-based modeling: the location of each molecular complex is abstracted by a spheric particle, while its internal structure in terms of a site-graph is maintained explicit. The particles diffuse inside the cellular compartment and the colliding complexes stochastically interact according to a rule-based scheme. Since rules operate over molecular motifs (instead of full complexes), the rule set compactly describes a combinatorial or even infinite number of reactions. The method is tested on a model of Mitogen Activated Protein Kinase (MAPK) cascade of yeast pheromone response signaling. Results demonstrate that the molecules of the MAPK cascade co-localize along scaffold molecules, while the scaffold binds to a plasma membrane bound upstream component, localizing the whole signaling complex to the plasma membrane. Especially we show, how rings stabilize the resulting molecular complexes and derive the effective dissociation rate constant for it

Modal Logics for Mobile Processes Revisited

We revisit the logical characterisations of various bisimilarity relations for the finite fragment of the ?-calculus. Our starting point is the early and the late bisimilarity, first defined in the seminal work of Milner, Parrow and Walker, who also proved their characterisations in fragments of a modal logic (which we refer to as the MPW logic). Two important refinements of early and late bisimilarity, called open and quasi-open bisimilarity, respectively, were subsequently proposed by Sangiorgi and Walker. Horne, et. al., showed that open and quasi-bisimilarity are characterised by intuitionistic modal logics: OM (for open bisimilarity) and FM (for quasi-open bisimilarity). In this work, we attempt to unify the logical characterisations of these bisimilarity relations, showing that they can be characterised by different sublogics of a unifying logic. A key insight to this unification derives from a reformulation of the four bisimilarity relations (early, late, open and quasi-open) that uses an explicit name context, and an observation that these relations can be distinguished by the relative scoping of names and their instantiations in the name context. This name context and name substitution then give rise to an accessibility relation in the underlying Kripke semantics of our logic, that is captured logically by an S4-like modal operator. We then show that the MPW, the OM and the FM logics can be embedded into fragments of our unifying classical modal logic. In the case of OM and FM, the embedding uses the fact that intuitionistic implication can be encoded in modal logic S4

Probabilistic Analysis of Binary Sessions

We study a probabilistic variant of binary session types that relate to a class of Finite-State Markov Chains. The probability annotations in session types enable the reasoning on the probability that a session terminates successfully, for some user-definable notion of successful termination. We develop a type system for a simple session calculus featuring probabilistic choices and show that the success probability of well-typed processes agrees with that of the sessions they use. To this aim, the type system needs to track the propagation of probabilistic choices across different sessions

Formalising Futures and Promises in Viper

National audienceFutures and promises are respectively a read-only and a write-once pointer to a placeholder in memory. They are used to transfer information between threads in the context of asynchronous concurrent programming. Futures and promises simplify the implementation of synchronisation mechanisms between threads. Nonetheless they can be error prone as data races may arise when references are shared and transferred. We aim at providing a formal tool to detect those errors. Hence, in this paper we propose a proof of concept by implementing the future/promise mechanism in Viper: a verification infrastructure, that provides a way to reason about resource ownership in programs