Utilizing semantic networks to database and retrieve generalized stochastic colored Petri nets

Previous work has introduced the Planning Coordinator (PCOORD), a coordinator functioning within the hierarchy of the Intelligent Machine Mode. Within the structure of the Planning Coordinator resides the Primitive Structure Database (PSDB) functioning to provide the primitive structures utilized by the Planning Coordinator in the establishing of error recovery or on-line path plans. This report further explores the Primitive Structure Database and establishes the potential of utilizing semantic networks as a means of efficiently storing and retrieving the Generalized Stochastic Colored Petri Nets from which the error recovery plans are derived

On Modelling and Analysis of Dynamic Reconfiguration of Dependable Real-Time Systems

This paper motivates the need for a formalism for the modelling and analysis of dynamic reconfiguration of dependable real-time systems. We present requirements that the formalism must meet, and use these to evaluate well established formalisms and two process algebras that we have been developing, namely, Webpi and CCSdp. A simple case study is developed to illustrate the modelling power of these two formalisms. The paper shows how Webpi and CCSdp represent a significant step forward in modelling adaptive and dependable real-time systems.Comment: Presented and published at DEPEND 201

Enhancing the Supply Chain Performance by Integrating Simulated and Physical Agents into Organizational Information Systems

As the business environment gets more complicated, organizations must be able to respond to the business changes and adjust themselves quickly to gain their competitive advantages. This study proposes an integrated agent system, called SPA, which coordinates simulated and physical agents to provide an efficient way for organizations to meet the challenges in managing supply chains. In the integrated framework, physical agents coordinate with inter-organizations\' physical agents to form workable business processes and detect the variations occurring in the outside world, whereas simulated agents model and analyze the what-if scenarios to support physical agents in making decisions. This study uses a supply chain that produces digital still cameras as an example to demonstrate how the SPA works. In this example, individual information systems of the involved companies equip with the SPA and the entire supply chain is modeled as a hierarchical object oriented Petri nets. The SPA here applies the modified AGNES data clustering technique and the moving average approach to help each firm generalize customers\' past demand patterns and forecast their future demands. The amplitude of forecasting errors caused by bullwhip effects is used as a metric to evaluate the degree that the SPA affects the supply chain performance. The experimental results show that the SPA benefits the entire supply chain by reducing the bullwhip effects and forecasting errors in a dynamic environment.Supply Chain Performance Enhancement; Bullwhip Effects; Simulated Agents; Physical Agents; Dynamic Customer Demand Pattern Discovery

A System for Deduction-based Formal Verification of Workflow-oriented Software Models

The work concerns formal verification of workflow-oriented software models using deductive approach. The formal correctness of a model's behaviour is considered. Manually building logical specifications, which are considered as a set of temporal logic formulas, seems to be the significant obstacle for an inexperienced user when applying the deductive approach. A system, and its architecture, for the deduction-based verification of workflow-oriented models is proposed. The process of inference is based on the semantic tableaux method which has some advantages when compared to traditional deduction strategies. The algorithm for an automatic generation of logical specifications is proposed. The generation procedure is based on the predefined workflow patterns for BPMN, which is a standard and dominant notation for the modeling of business processes. The main idea for the approach is to consider patterns, defined in terms of temporal logic,as a kind of (logical) primitives which enable the transformation of models to temporal logic formulas constituting a logical specification. Automation of the generation process is crucial for bridging the gap between intuitiveness of the deductive reasoning and the difficulty of its practical application in the case when logical specifications are built manually. This approach has gone some way towards supporting, hopefully enhancing our understanding of, the deduction-based formal verification of workflow-oriented models.Comment: International Journal of Applied Mathematics and Computer Scienc

An Executable System Architecture Approach to Discrete Events System Modeling Using SysML in Conjunction with Colored Petri Net

This paper proposes an executable system architecting paradigm for discrete event system modeling and analysis through integration of a set of architecting tools, executable modeling tools, analytical tools, and visualization tools. The essential step is translating SysML-based specifications into colored Petri nets (CPNs) which enables rigorous static and dynamic system analysis as well as formal verification of the behavior and functionality of the SysML-based design. A set of tools have been studied and integrated that enable a structured architecture design process. Some basic principles of executable system architecture for discrete event system modeling that guide the process of executable architecture specification and analysis are discussed. This paradigm is aimed at general system design. Its feasibility was demonstrated with a C4- type network centric system as an example. The simulation results was used to check the overall integrity and internal consistency of the architecture models, refine the architecture design, and, finally, verify the behavior and functionality of the system being modeled

Formal Model Engineering for Embedded Systems Using Real-Time Maude

This paper motivates why Real-Time Maude should be well suited to provide a formal semantics and formal analysis capabilities to modeling languages for embedded systems. One can then use the code generation facilities of the tools for the modeling languages to automatically synthesize Real-Time Maude verification models from design models, enabling a formal model engineering process that combines the convenience of modeling using an informal but intuitive modeling language with formal verification. We give a brief overview six fairly different modeling formalisms for which Real-Time Maude has provided the formal semantics and (possibly) formal analysis. These models include behavioral subsets of the avionics modeling standard AADL, Ptolemy II discrete-event models, two EMF-based timed model transformation systems, and a modeling language for handset software.Comment: In Proceedings AMMSE 2011, arXiv:1106.596

Process Calculi Abstractions for Biology

Several approaches have been proposed to model biological systems by means of the formal techniques and tools available in computer science. To mention just a few of them, some representations are inspired by Petri Nets theory, and some other by stochastic processes. A most recent approach consists in interpreting the living entities as terms of process calculi where the behavior of the represented systems can be inferred by applying syntax-driven rules. A comprehensive picture of the state of the art of the process calculi approach to biological modeling is still missing. This paper goes in the direction of providing such a picture by presenting a comparative survey of the process calculi that have been used and proposed to describe the behavior of living entities. This is the preliminary version of a paper that was published in Algorithmic Bioprocesses. The original publication is available at http://www.springer.com/computer/foundations/book/978-3-540-88868-

On functional module detection in metabolic networks

Functional modules of metabolic networks are essential for understanding the metabolism of an organism as a whole. With the vast amount of experimental data and the construction of complex and large-scale, often genome-wide, models, the computer-aided identification of functional modules becomes more and more important. Since steady states play a key role in biology, many methods have been developed in that context, for example, elementary flux modes, extreme pathways, transition invariants and place invariants. Metabolic networks can be studied also from the point of view of graph theory, and algorithms for graph decomposition have been applied for the identification of functional modules. A prominent and currently intensively discussed field of methods in graph theory addresses the Q-modularity. In this paper, we recall known concepts of module detection based on the steady-state assumption, focusing on transition-invariants (elementary modes) and their computation as minimal solutions of systems of Diophantine equations. We present the Fourier-Motzkin algorithm in detail. Afterwards, we introduce the Q-modularity as an example for a useful non-steady-state method and its application to metabolic networks. To illustrate and discuss the concepts of invariants and Q-modularity, we apply a part of the central carbon metabolism in potato tubers (Solanum tuberosum) as running example. The intention of the paper is to give a compact presentation of known steady-state concepts from a graph-theoretical viewpoint in the context of network decomposition and reduction and to introduce the application of Q-modularity to metabolic Petri net models

Membrane Systems and Petri Net Synthesis

Automated synthesis from behavioural specifications is an attractive and powerful way of constructing concurrent systems. Here we focus on the problem of synthesising a membrane system from a behavioural specification given in the form of a transition system which specifies the desired state space of the system to be constructed. We demonstrate how a Petri net solution to this problem, based on the notion of region of a transition system, yields a method of automated synthesis of membrane systems from state spaces.Comment: In Proceedings MeCBIC 2012, arXiv:1211.347