Giuseppe Della Penna, Benedetto Intrigila, Igor Melatti, Enrico Tronci, and Marisa Venturini Zilli. "Finite horizon analysis of Markov Chains with the Mur$\varphi$ verifier." Int. J. Softw. Tools Technol. Transf. 8, no. 4 (2006): 397–409. Springer-Verlag. ISSN: 1433-2779. DOI: 10.1007/s10009-005-0216-7.
Abstract: In this paper we present an explicit disk-based verification algorithm for Probabilistic Systems defining discrete time/finite state Markov Chains. Given a Markov Chain and an integer k (horizon), our algorithm checks whether the probability of reaching an error state in at most k steps is below a given threshold. We present an implementation of our algorithm within a suitable extension of the Mur$\varphi$ verifier. We call the resulting probabilistic model checker FHP-Mur$\varphi$ (Finite Horizon Probabilistic Mur$\varphi$). We present experimental results comparing FHP-Mur$\varphi$ with (a finite horizon subset of) PRISM, a state-of-the-art symbolic model checker for Markov Chains. Our experimental results show that FHP-Mur$\varphi$ can handle systems that are out of reach for PRISM, namely those involving arithmetic operations on the state variables (e.g. hybrid systems).
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Igor Melatti, Robert Palmer, Geoffrey Sawaya, Yu Yang, Robert Mike Kirby, and Ganesh Gopalakrishnan. "Parallel and distributed model checking in Eddy." Int. J. Softw. Tools Technol. Transf. 11, no. 1 (2009): 13–25. Springer-Verlag. ISSN: 1433-2779. DOI: 10.1007/s10009-008-0094-x.
Abstract: Model checking of safety properties can be scaled up by pooling the CPU and memory resources of multiple computers. As compute clusters containing 100s of nodes, with each node realized using multi-core (e.g., 2) CPUs will be widespread, a model checker based on the parallel (shared memory) and distributed (message passing) paradigms will more efficiently use the hardware resources. Such a model checker can be designed by having each node employ two shared memory threads that run on the (typically) two CPUs of a node, with one thread responsible for state generation, and the other for efficient communication, including (1) performing overlapped asynchronous message passing, and (2) aggregating the states to be sent into larger chunks in order to improve communication network utilization. We present the design details of such a novel model checking architecture called Eddy. We describe the design rationale, details of how the threads interact and yield control, exchange messages, as well as detect termination. We have realized an instance of this architecture for the Murphi modeling language. Called Eddy_Murphi, we report its performance over the number of nodes as well as communication parameters such as those controlling state aggregation. Nearly linear reduction of compute time with increasing number of nodes is observed. Our thread task partition is done in such a way that it is modular, easy to port across different modeling languages, and easy to tune across a variety of platforms.
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Benedetto Intrigila, Igor Melatti, Alberto Tofani, and Guido Macchiarelli. "Computational models of myocardial endomysial collagen arrangement." Computer Methods and Programs in Biomedicine 86, no. 3 (2007): 232–244. Elsevier North-Holland, Inc.. ISSN: 0169-2607. DOI: 10.1016/j.cmpb.2007.03.004.
Abstract: Collagen extracellular matrix is one of the factors related to high passive stiffness of cardiac muscle. However, the architecture and the mechanical aspects of the cardiac collagen matrix are not completely known. In particular, endomysial collagen contribution to the passive mechanics of cardiac muscle as well as its micro anatomical arrangement is still a matter of debate. In order to investigate mechanical and structural properties of endomysial collagen, we consider two alternative computational models of some specific aspects of the cardiac muscle. These two models represent two different views of endomysial collagen distribution: (1) the traditional view and (2) a new view suggested by the data obtained from scanning electron microscopy (SEM) in NaOH macerated samples (a method for isolating collagen from the other tissue). We model the myocardial tissue as a net of spring elements representing the cardiomyocytes together with the endomysial collagen distribution. Each element is a viscous elastic spring, characterized by an elastic and a viscous constant. We connect these springs to imitate the interconnections between collagen fibers. Then we apply to the net of springs some external forces of suitable magnitude and direction, obtaining an extension of the net itself. In our setting, the ratio forces magnitude /net extension is intended to model the stress /strain ratio of a microscopical portion of the myocardial tissue. To solve the problem of the correct identification of the values of the different parameters involved, we use an artificial neural network approach. In particular, we use this technique to learn, given a distribution of external forces, the elastic constants of the springs needed to obtain a desired extension as an equilibrium position. Our experimental findings show that, in the model of collagen distribution structured according to the new view, a given stress /strain ratio (of the net of springs, in the sense specified above) is obtained with much smaller (w.r.t. the other model, corresponding to the traditional view) elasticity constants of the springs. This seems to indicate that by an appropriate structure, a given stiffness of the myocardial tissue can be obtained with endomysial collagen fibers of much smaller size.
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Giuseppe Della Penna, Benedetto Intrigila, Igor Melatti, Enrico Tronci, and Marisa Venturini Zilli. "Exploiting Transition Locality in Automatic Verification of Finite State Concurrent Systems." Sttt 6, no. 4 (2004): 320–341. DOI: 10.1007/s10009-004-0149-6.
Abstract: In this paper we show that statistical properties of the transition graph of a system to be verified can be exploited to improve memory or time performances of verification algorithms. We show experimentally that protocols exhibit transition locality. That is, with respect to levels of a breadth-first state space exploration, state transitions tend to be between states belonging to close levels of the transition graph. We support our claim by measuring transition locality for the set of protocols included in the Mur$\varphi$ verifier distribution. We present a cache-based verification algorithm that exploits transition locality to decrease memory usage and a disk-based verification algorithm that exploits transition locality to decrease disk read accesses, thus reducing the time overhead due to disk usage. Both algorithms have been implemented within the Mur$\varphi$ verifier. Our experimental results show that our cache-based algorithm can typically save more than 40% of memory with an average time penalty of about 50% when using (Mur$\varphi$) bit compression and 100% when using bit compression and hash compaction, whereas our disk-based verification algorithm is typically more than ten times faster than a previously proposed disk-based verification algorithm and, even when using 10% of the memory needed to complete verification, it is only between 40 and 530% (300% on average) slower than (RAM) Mur$\varphi$ with enough memory to complete the verification task at hand. Using just 300 MB of memory our disk-based Mur$\varphi$ was able to complete verification of a protocol with about $10^9$ reachable states. This would require more than 5 GB of memory using standard Mur$\varphi$.
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Federico Mari, Igor Melatti, Ivano Salvo, and Enrico Tronci. "Synthesizing Control Software from Boolean Relations." International Journal on Advances in Software vol. 5, nr 3&4 (2012): 212–223. IARIA. ISSN: 1942-2628.
Abstract: Many software as well digital hardware automatic
synthesis methods define the set of
implementations meeting the given system
specifications with a boolean relation K. In
such a context a fundamental step in the software
(hardware) synthesis process is finding effective
solutions to the functional equation defined by
K. This entails finding a (set of) boolean
function(s) F (typically represented using
OBDDs, Ordered Binary Decision Diagrams)
such that: 1) for all x for which K is
satisfiable, K(x, F(x)) = 1 holds; 2) the
implementation of F is efficient with respect
to given implementation parameters such as code
size or execution time. While this problem has
been widely studied in digital hardware synthesis,
little has been done in a software synthesis
context. Unfortunately, the approaches developed
for hardware synthesis cannot be directly used in
a software context. This motivates investigation
of effective methods to solve the above problem
when F has to be implemented with software. In
this paper, we present an algorithm that, from an
OBDD representation for K, generates a C code
implementation for F that has the same size as
the OBDD for F and a worst case execution time
linear in nr, being n = |x| the number of
input arguments for functions in F and r the
number of functions in F. Moreover, a formal
proof of the proposed algorithm correctness is
also shown. Finally, we present experimental
results showing effectiveness of the proposed
algorithm.
Keywords: Control Software Synthesis; Embedded Systems; Model Checking
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Federico Mari, Igor Melatti, Enrico Tronci, and Alberto Finzi. "A multi-hop advertising discovery and delivering protocol for multi administrative domain MANET." Mobile Information Systems 3, no. 9 (2013): 261–280. IOS Press. ISSN: 1574-017x (Print) 1875-905X (Online). DOI: 10.3233/MIS-130162.
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Federico Mari, Igor Melatti, Ivano Salvo, and Enrico Tronci. "Model Based Synthesis of Control Software from System Level Formal Specifications." ACM TRANSACTIONS ON SOFTWARE ENGINEERING AND METHODOLOGY 23, no. 1 (2014): Article 6. ACM. ISSN: 1049-331X. DOI: 10.1145/2559934.
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Giuseppe Della Penna, Benedetto Intrigila, Daniele Magazzeni, Igor Melatti, and Enrico Tronci. "CGMurphi: Automatic synthesis of numerical controllers for nonlinear hybrid systems." European Journal of Control 19, no. 1 (2013): 14–36. Elsevier North-Holland, Inc.. ISSN: 0947-3580. DOI: 10.1016/j.ejcon.2013.02.001.
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Federico Mari, Igor Melatti, Ivano Salvo, and Enrico Tronci. "Linear Constraints and Guarded Predicates as a Modeling Language for Discrete Time Hybrid Systems." International Journal on Advances in Software vol. 6, nr 1&2 (2013): 155–169. IARIA. ISSN: 1942-2628.
Abstract: Model based design is particularly appealing in
software based control systems (e.g., embedded
software) design, since in such a case system
level specifications are much easier to define
than the control software behavior itself. In
turn, model based design of embedded systems
requires modeling both continuous subsystems
(typically, the plant) as well as discrete
subsystems (the controller). This is typically
done using hybrid systems. Mixed Integer Linear
Programming (MILP) based abstraction techniques
have been successfully applied to automatically
synthesize correct-by-construction control
software for discrete time linear hybrid systems,
where plant dynamics is modeled as a linear
predicate over state, input, and next state
variables. Unfortunately, MILP solvers require
such linear predicates to be conjunctions of
linear constraints, which is not a natural way of
modeling hybrid systems. In this paper we show
that, under the hypothesis that each variable
ranges over a bounded interval, any linear
predicate built upon conjunction and disjunction
of linear constraints can be automatically
translated into an equivalent conjunctive
predicate. Since variable bounds play a key role
in this translation, our algorithm includes a
procedure to compute all implicit variable bounds
of the given linear predicate. Furthermore, we
show that a particular form of linear predicates,
namely guarded predicates, are a natural and
powerful language to succinctly model discrete
time linear hybrid systems dynamics. Finally, we
experimentally show the feasibility of our
approach on an important and challenging case
study taken from the literature, namely the
multi-input Buck DC-DC Converter. As an example,
the guarded predicate that models (with 57
constraints) a 6-inputs Buck DC-DC Converter is
translated in a conjunctive predicate (with 102
linear constraints) in about 40 minutes.
Keywords: Model-based software design; Linear predicates; Hybrid systems
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Toni Mancini, Enrico Tronci, Ivano Salvo, Federico Mari, Annalisa Massini, and Igor Melatti. "Computing Biological Model Parameters by Parallel Statistical Model Checking." International Work Conference on Bioinformatics and Biomedical Engineering (IWBBIO 2015) 9044 (2015): 542–554. DOI: 10.1007/978-3-319-16480-9_52.
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