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In the area of Natural Computing, Reaction Systems (RSs) are a qualitative abstraction inspired by the functioning of living cells, suitable to model the main mechanisms of biochemical reactions. RSs interact with a context, and pose challenges for modularity, compositionality, extendibility and behavioural equivalence. In this paper we define a modular encoding of RSs as processes in the chained Core Network Algebra (cCNA), which is a new variant of the link-calculus. The encoding represents the behaviour of each entity separately and preserves faithfully their features, and we prove its correctness and completeness. Our encoding provides a Labelled Transition System (LTS) semantics for RSs. Based on the LTS semantics, we adapt the classical notion of bisimulation to define a novel equivalence, called bio-similarity, for studying properties of RSs. In particular, we define a new assertion language based on regular expressions, which allows us to specify the properties of interest, and use it to extend Hennessy-Milner logic to our setting. We prove that our bio-similarity relation and the logical equivalence, that are defined parametrically on some assertion of interest, coincide. Finally, we claim that our encoding contributes to increase the expressiveness of RSs, by exploiting the interaction among different RSs. [ABSTRACT FROM AUTHOR]

A specification given as a formula in linear temporal logic (LTL) defines a system by its set of traces. However, certain features such as information flow security constraints are rather modeled as so-called hyperproperties, which are sets of sets of traces. One logical approach to this is team logic, which is a logical framework for the specification of dependence and independence of information. LTL with team semantics has recently been discovered as a logic for hyperproperties. We study the complexity theoretic aspects of LTL with so-called synchronous team semantics and Boolean negation, and prove that both its model checking and satisfiability problems are highly undecidable, and equivalent to the decision problem of third-order arithmetic. Furthermore, we prove that this complexity already appears at small temporal depth and with only the "future" modality F. Finally, we also introduce a team-semantical generalization of stutter-invariance. [ABSTRACT FROM AUTHOR]

This paper introduces Graded Computation Tree Logic with finite path semantics (GCTL f ⁎ , for short), a variant of Computation Tree Logic CTL⁎, in which path quantifiers are interpreted over finite paths and can count the number of such paths. State formulas of GCTL f ⁎ are interpreted over Kripke structures. The syntax of GCTL f ⁎ has path quantifiers of the form E ≥ g ψ which express that there are at least g many distinct finite paths that satisfy ψ. After defining and justifying the logic GCTL f ⁎ , we solve its model checking problem and establish that its computational complexity is PSPACE-complete. Moreover, we investigate GCTL f ⁎ under the imperfect information setting. Precisely, we introduce GCTLK f ⁎ , an epistemic extension of GCTL f ⁎ and prove that the model checking problem also in this case is PSPACE-complete. [ABSTRACT FROM AUTHOR]

We study a variant ATL FB of the alternating-time temporal logic ATL with a non-standard, 'finitely bounded' semantics (FBS). FBS was originally defined as a game-theoretic semantics where players must commit to time limits when attempting to verify eventuality (respectively, to falsify safety) formulae. It turns out that FBS has a natural corresponding compositional semantics that essentially evaluates formulae only on finite initial segments of paths and imposes uniform bounds on all plays for the fulfilment of eventualities. The resulting version ATL FB differs in some essential features from the standard ATL, as it no longer has the finite model property, though the two logics are equivalent on finite models. We develop two tableau systems for ATL FB. The first one deals with infinite sets of formulae and may run in a transfinite sequence of steps, whereas the second one deals only with finite sets of formulae in an extended language allowing explicit symbolic indication of time limits in formulae. We prove soundness and completeness of the infinitary tableau system and prove that it is equivalent to the finitary one. We also show that the finitary tableau system provides an exponential-time decision procedure for the satisfiability problem of ATL FB and thus establishes its EXPTIME-completeness. Furthermore, we present an infinitary axiomatization for ATL FB and prove its soundness and completeness. [ABSTRACT FROM AUTHOR]

In Temporal Logic (TL), a well-formed formula is generally formed by applying rules of its syntax finitely many times. However, under some circumstances, although formulas such as ones expressed by index set expressions , are constructed via applying rules of the syntax infinitely many times, they are possibly still well-formed since their equivalent concise syntax formulas can be found. With this motivation, this paper investigates the relationship between formulas specified by index set expressions and concise syntax by means of fixed-point approach. Firstly, we present two kinds of formulas, namely ⋁ i ∈ N 0 ◯ i Q and ⋁ i ∈ N 0 Q i , and prove they are indeed well-formed by proving they are equivalent to formulas ◇ Q and Q ⁎ respectively. Further, we generalize ⋁ i ∈ N 0 ◯ i Q to ⋁ i ∈ N 0 P (i) ∧ ◯ i Q and explore the least and greatest fixed-points of an abstract equation X ≡ Q ∨ P ∧ ◯ X. Based on these, some well-formed special instances of ⋁ i ∈ N 0 P (i) ∧ ◯ i Q are obtained. Besides, with the index set expression technique, we equivalently represent ' U ' (strong until) and ' W ' (weak until) constructs of propositional Linear Temporal Logic (LTL) within Propositional Projection Temporal Logic (PPTL). [ABSTRACT FROM AUTHOR]

A logical theory for interface specification and verification of distributed, concurrent, interactive, real-time systems is worked out based on a semantic foundation including operational and denotational semantics. It supports a calculus for the specification and verification of concurrent interactive systems by interface assertions. Systems are composed acting concurrently and interacting via streams exchanged over their channels forming feedback loops. A denotational semantics is defined handling feedback communication by recursion and fixpoints based on strong causality and realizability instead of monotonicity. The resulting verification calculus for the specification logic is proved to be sound and relatively complete with respect to an operational semantics in terms of generalized Moore machines. Actually, two models of concurrent systems are defined, a more abstract one with communication and interaction modeled by untimed streams and a more concrete one working with timed streams. The untimed model is an abstraction of the timed model. The timed model allows expressing the laws of causality and realizability. Moreover, the timed model can be used to specify real-time properties. [ABSTRACT FROM AUTHOR]

We introduce a new concept in the area of formal logic: axioms for model morphisms. We work in the setting of specification languages that define the semantics of a theory as a category of models. While it is routine to use axioms to specify the class of models of a theory, there has so far been no analogue to systematically specify the morphisms between these models. This leads to subtle problems where it is difficult to give a theory that specifies the intended model category, or where seemingly isomorphic theories actually have non-isomorphic model categories. Our morphism axioms remedy this by providing new syntax for axiomatizing and reasoning about the properties of model morphisms. Additionally, our system resolves a subtle incompatibility between theory morphisms and model morphisms: the semantics that maps theories to model categories is functorial. While this result is standard in principle, previous formulations had to restrict the allowed theory morphisms or the allowed model morphisms. Our system allows establishing the result in full generality. [ABSTRACT FROM AUTHOR]

Although there have been many works on bounded semantics, a characterization of a good definition for a bounded semantics has not been given, and this has led to definitions of bounded semantics of temporal logics that may not be appropriate with respect to the potential usefulness as a basis for developing bounded model checking approaches. On the other side, the research effort on bounded semantics has mainly focused on existentially interpreted fragments of temporal logics, due to the intricacy of defining appropriate bounded semantics for universally interpreted fragments, or for temporal logics with path quantifiers that are closed under negation. This work addresses these two problems, by defining the characteristics of bounded semantics for clarifying the concept of bounded semantics, and presenting a bounded semantics for the full set of CTL, a logic closed under negation, including possibility for specifying both existential and universal properties. [ABSTRACT FROM AUTHOR]