BeSpaceD: Towards a Tool Framework and Methodology for the Specification and Verification of Spatial Behavior of Distributed Software Component Systems

In this report, we present work towards a framework for modeling and checking behavior of spatially distributed component systems. Design goals of our framework are the ability to model spatial behavior in a component oriented, simple and intuitive way, the possibility to automatically analyse and verify systems and integration possibilities with other modeling and verification tools. We present examples and the verification steps necessary to prove properties such as range coverage or the absence of collisions between components and technical details

Changing a semantics: opportunism or courage?

The generalized models for higher-order logics introduced by Leon Henkin, and their multiple offspring over the years, have become a standard tool in many areas of logic. Even so, discussion has persisted about their technical status, and perhaps even their conceptual legitimacy. This paper gives a systematic view of generalized model techniques, discusses what they mean in mathematical and philosophical terms, and presents a few technical themes and results about their role in algebraic representation, calibrating provability, lowering complexity, understanding fixed-point logics, and achieving set-theoretic absoluteness. We also show how thinking about Henkin's approach to semantics of logical systems in this generality can yield new results, dispelling the impression of adhocness. This paper is dedicated to Leon Henkin, a deep logician who has changed the way we all work, while also being an always open, modest, and encouraging colleague and friend.Comment: 27 pages. To appear in: The life and work of Leon Henkin: Essays on his contributions (Studies in Universal Logic) eds: Manzano, M., Sain, I. and Alonso, E., 201

Modal logics are coalgebraic

Applications of modal logics are abundant in computer science, and a large number of structurally different modal logics have been successfully employed in a diverse spectrum of application contexts. Coalgebraic semantics, on the other hand, provides a uniform and encompassing view on the large variety of specific logics used in particular domains. The coalgebraic approach is generic and compositional: tools and techniques simultaneously apply to a large class of application areas and can moreover be combined in a modular way. In particular, this facilitates a pick-and-choose approach to domain specific formalisms, applicable across the entire scope of application areas, leading to generic software tools that are easier to design, to implement, and to maintain. This paper substantiates the authors' firm belief that the systematic exploitation of the coalgebraic nature of modal logic will not only have impact on the field of modal logic itself but also lead to significant progress in a number of areas within computer science, such as knowledge representation and concurrency/mobility

Topological Foundations of Cognitive Science

A collection of papers presented at the First International Summer Institute in Cognitive Science, University at Buffalo, July 1994, including the following papers: ** Topological Foundations of Cognitive Science, Barry Smith ** The Bounds of Axiomatisation, Graham White ** Rethinking Boundaries, Wojciech Zelaniec ** Sheaf Mereology and Space Cognition, Jean Petitot ** A Mereotopological Definition of 'Point', Carola Eschenbach ** Discreteness, Finiteness, and the Structure of Topological Spaces, Christopher Habel ** Mass Reference and the Geometry of Solids, Almerindo E. Ojeda ** Defining a 'Doughnut' Made Difficult, N .M. Gotts ** A Theory of Spatial Regions with Indeterminate Boundaries, A.G. Cohn and N.M. Gotts ** Mereotopological Construction of Time from Events, Fabio Pianesi and Achille C. Varzi ** Computational Mereology: A Study of Part-of Relations for Multi-media Indexing, Wlodek Zadrozny and Michelle Ki

Categorical Ontology of Complex Systems, Meta-Systems and Theory of Levels: The Emergence of Life, Human Consciousness and Society

Single cell interactomics in simpler organisms, as well as somatic cell interactomics in multicellular organisms, involve biomolecular interactions in complex signalling pathways that were recently represented in modular terms by quantum automata with ‘reversible behavior’ representing normal cell cycling and division. Other implications of such quantum automata, modular modeling of signaling pathways and cell differentiation during development are in the fields of neural plasticity and brain development leading to quantum-weave dynamic patterns and specific molecular processes underlying extensive memory, learning, anticipation mechanisms and the emergence of human consciousness during the early brain development in children. Cell interactomics is here represented for the first time as a mixture of ‘classical’ states that determine molecular dynamics subject to Boltzmann statistics and ‘steady-state’, metabolic (multi-stable) manifolds, together with ‘configuration’ spaces of metastable quantum states emerging from complex quantum dynamics of interacting networks of biomolecules, such as proteins and nucleic acids that are now collectively defined as quantum interactomics. On the other hand, the time dependent evolution over several generations of cancer cells --that are generally known to undergo frequent and extensive genetic mutations and, indeed, suffer genomic transformations at the chromosome level (such as extensive chromosomal aberrations found in many colon cancers)-- cannot be correctly represented in the ‘standard’ terms of quantum automaton modules, as the normal somatic cells can. This significant difference at the cancer cell genomic level is therefore reflected in major changes in cancer cell interactomics often from one cancer cell ‘cycle’ to the next, and thus it requires substantial changes in the modeling strategies, mathematical tools and experimental designs aimed at understanding cancer mechanisms. Novel solutions to this important problem in carcinogenesis are proposed and experimental validation procedures are suggested. From a medical research and clinical standpoint, this approach has important consequences for addressing and preventing the development of cancer resistance to medical therapy in ongoing clinical trials involving stage III cancer patients, as well as improving the designs of future clinical trials for cancer treatments.\ud \ud \ud KEYWORDS: Emergence of Life and Human Consciousness;\ud Proteomics; Artificial Intelligence; Complex Systems Dynamics; Quantum Automata models and Quantum Interactomics; quantum-weave dynamic patterns underlying human consciousness; specific molecular processes underlying extensive memory, learning, anticipation mechanisms and human consciousness; emergence of human consciousness during the early brain development in children; Cancer cell ‘cycling’; interacting networks of proteins and nucleic acids; genetic mutations and chromosomal aberrations in cancers, such as colon cancer; development of cancer resistance to therapy; ongoing clinical trials involving stage III cancer patients’ possible improvements of the designs for future clinical trials and cancer treatments. \ud \u

Stone-Type Dualities for Separation Logics

Stone-type duality theorems, which relate algebraic and relational/topological models, are important tools in logic because -- in addition to elegant abstraction -- they strengthen soundness and completeness to a categorical equivalence, yielding a framework through which both algebraic and topological methods can be brought to bear on a logic. We give a systematic treatment of Stone-type duality for the structures that interpret bunched logics, starting with the weakest systems, recovering the familiar BI and Boolean BI (BBI), and extending to both classical and intuitionistic Separation Logic. We demonstrate the uniformity and modularity of this analysis by additionally capturing the bunched logics obtained by extending BI and BBI with modalities and multiplicative connectives corresponding to disjunction, negation and falsum. This includes the logic of separating modalities (LSM), De Morgan BI (DMBI), Classical BI (CBI), and the sub-classical family of logics extending Bi-intuitionistic (B)BI (Bi(B)BI). We additionally obtain as corollaries soundness and completeness theorems for the specific Kripke-style models of these logics as presented in the literature: for DMBI, the sub-classical logics extending BiBI and a new bunched logic, Concurrent Kleene BI (connecting our work to Concurrent Separation Logic), this is the first time soundness and completeness theorems have been proved. We thus obtain a comprehensive semantic account of the multiplicative variants of all standard propositional connectives in the bunched logic setting. This approach synthesises a variety of techniques from modal, substructural and categorical logic and contextualizes the "resource semantics" interpretation underpinning Separation Logic amongst them

On Role Logic

We present role logic, a notation for describing properties of relational structures in shape analysis, databases, and knowledge bases. We construct role logic using the ideas of de Bruijn's notation for lambda calculus, an encoding of first-order logic in lambda calculus, and a simple rule for implicit arguments of unary and binary predicates. The unrestricted version of role logic has the expressive power of first-order logic with transitive closure. Using a syntactic restriction on role logic formulas, we identify a natural fragment RL^2 of role logic. We show that the RL^2 fragment has the same expressive power as two-variable logic with counting C^2 and is therefore decidable. We present a translation of an imperative language into the decidable fragment RL^2, which allows compositional verification of programs that manipulate relational structures. In addition, we show how RL^2 encodes boolean shape analysis constraints and an expressive description logic.Comment: 20 pages. Our later SAS 2004 result builds on this wor