The ModelCC Model-Driven Parser Generator

Syntax-directed translation tools require the specification of a language by means of a formal grammar. This grammar must conform to the specific requirements of the parser generator to be used. This grammar is then annotated with semantic actions for the resulting system to perform its desired function. In this paper, we introduce ModelCC, a model-based parser generator that decouples language specification from language processing, avoiding some of the problems caused by grammar-driven parser generators. ModelCC receives a conceptual model as input, along with constraints that annotate it. It is then able to create a parser for the desired textual syntax and the generated parser fully automates the instantiation of the language conceptual model. ModelCC also includes a reference resolution mechanism so that ModelCC is able to instantiate abstract syntax graphs, rather than mere abstract syntax trees.Comment: In Proceedings PROLE 2014, arXiv:1501.0169

Modelling and Analysis Using GROOVE

In this paper we present case studies that describe how the graph transformation tool GROOVE has been used to model problems from a wide variety of domains. These case studies highlight the wide applicability of GROOVE in particular, and of graph transformation in general. They also give concrete templates for using GROOVE in practice. Furthermore, we use the case studies to analyse the main strong and weak points of GROOVE

OpenJML: Software verification for Java 7 using JML, OpenJDK, and Eclipse

OpenJML is a tool for checking code and specifications of Java programs. We describe our experience building the tool on the foundation of JML, OpenJDK and Eclipse, as well as on many advances in specification-based software verification. The implementation demonstrates the value of integrating specification tools directly in the software development IDE and in automating as many tasks as possible. The tool, though still in progress, has now been used for several college-level courses on software specification and verification and for small-scale studies on existing Java programs.Comment: In Proceedings F-IDE 2014, arXiv:1404.578

Monitoring-Oriented Programming: A Tool-Supported Methodology for Higher Quality Object-Oriented Software

This paper presents a tool-supported methodological paradigm for object-oriented software development, called monitoring-oriented programming and abbreviated MOP, in which runtime monitoring is a basic software design principle. The general idea underlying MOP is that software developers insert specifications in their code via annotations. Actual monitoring code is automatically synthesized from these annotations before compilation and integrated at appropriate places in the program, according to user-defined configuration attributes. This way, the specification is checked at runtime against the implementation. Moreover, violations and/or validations of specifications can trigger user-defined code at any points in the program, in particular recovery code, outputting or sending messages, or raising exceptions. The MOP paradigm does not promote or enforce any specific formalism to specify requirements: it allows the users to plug-in their favorite or domain-specific specification formalisms via logic plug-in modules. There are two major technical challenges that MOP supporting tools unavoidably face: monitor synthesis and monitor integration. The former is heavily dependent on the specification formalism and comes as part of the corresponding logic plug-in, while the latter is uniform for all specification formalisms and depends only on the target programming language. An experimental prototype tool, called Java-MOP, is also discussed, which currently supports most but not all of the desired MOP features. MOP aims at reducing the gap between formal specification and implementation, by integrating the two and allowing them together to form a system

Transformation Techniques for OCL Constraints

Constraints play a key role in the definition of conceptual schemas. In the UML, constraints are usually specified by means of invariants written in the OCL. However, due to the high expressiveness of the OCL, the designer has different syntactic alternatives to express each constraint. The techniques presented in this paper assist the designer during the definition of the constraints by means of generating equivalent alternatives for the initially defined ones. Moreover, in the context of the MDA, transformations between these different alternatives are required as part of the PIM-to-PIM, PIM-to-PSM or PIM-to-code transformations of the original conceptual schema

Reproducible computational biology experiments with SED-ML - The Simulation Experiment Description Markup Language

Background: The increasing use of computational simulation experiments to inform modern biological research creates new challenges to annotate, archive, share and reproduce such experiments. The recently published Minimum Information About a Simulation Experiment (MIASE) proposes a minimal set of information that should be provided to allow the reproduction of simulation experiments among users and software tools. Results: In this article, we present the Simulation Experiment Description Markup Language (SED-ML). SED-ML encodes in a computer-readable exchange format the information required by MIASE to enable reproduction of simulation experiments. It has been developed as a community project and it is defined in a detailed technical specification and additionally provides an XML schema. The version of SED-ML described in this publication is Level 1 Version 1. It covers the description of the most frequent type of simulation experiments in the area, namely time course simulations. SED-ML documents specify which models to use in an experiment, modifications to apply on the models before using them, which simulation procedures to run on each model, what analysis results to output, and how the results should be presented. These descriptions are independent of the underlying model implementation. SED-ML is a software-independent format for encoding the description of simulation experiments; it is not specific to particular simulation tools. Here, we demonstrate that with the growing software support for SED-ML we can effectively exchange executable simulation descriptions. Conclusions: With SED-ML, software can exchange simulation experiment descriptions, enabling the validation and reuse of simulation experiments in different tools. Authors of papers reporting simulation experiments can make their simulation protocols available for other scientists to reproduce the results. Because SED-ML is agnostic about exact modeling language(s) used, experiments covering models from different fields of research can be accurately described and combined