Inference with Constrained Hidden Markov Models in PRISM

A Hidden Markov Model (HMM) is a common statistical model which is widely used for analysis of biological sequence data and other sequential phenomena. In the present paper we show how HMMs can be extended with side-constraints and present constraint solving techniques for efficient inference. Defining HMMs with side-constraints in Constraint Logic Programming have advantages in terms of more compact expression and pruning opportunities during inference. We present a PRISM-based framework for extending HMMs with side-constraints and show how well-known constraints such as cardinality and all different are integrated. We experimentally validate our approach on the biologically motivated problem of global pairwise alignment

Planning as Tabled Logic Programming

This paper describes Picat's planner, its implementation, and planning models for several domains used in International Planning Competition (IPC) 2014. Picat's planner is implemented by use of tabling. During search, every state encountered is tabled, and tabled states are used to effectively perform resource-bounded search. In Picat, structured data can be used to avoid enumerating all possible permutations of objects, and term sharing is used to avoid duplication of common state data. This paper presents several modeling techniques through the example models, ranging from designing state representations to facilitate data sharing and symmetry breaking, encoding actions with operations for efficient precondition checking and state updating, to incorporating domain knowledge and heuristics. Broadly, this paper demonstrates the effectiveness of tabled logic programming for planning, and argues the importance of modeling despite recent significant progress in domain-independent PDDL planners.Comment: 27 pages in TPLP 201

Verification of Imperative Programs by Constraint Logic Program Transformation

We present a method for verifying partial correctness properties of imperative programs that manipulate integers and arrays by using techniques based on the transformation of constraint logic programs (CLP). We use CLP as a metalanguage for representing imperative programs, their executions, and their properties. First, we encode the correctness of an imperative program, say prog, as the negation of a predicate 'incorrect' defined by a CLP program T. By construction, 'incorrect' holds in the least model of T if and only if the execution of prog from an initial configuration eventually halts in an error configuration. Then, we apply to program T a sequence of transformations that preserve its least model semantics. These transformations are based on well-known transformation rules, such as unfolding and folding, guided by suitable transformation strategies, such as specialization and generalization. The objective of the transformations is to derive a new CLP program TransfT where the predicate 'incorrect' is defined either by (i) the fact 'incorrect.' (and in this case prog is not correct), or by (ii) the empty set of clauses (and in this case prog is correct). In the case where we derive a CLP program such that neither (i) nor (ii) holds, we iterate the transformation. Since the problem is undecidable, this process may not terminate. We show through examples that our method can be applied in a rather systematic way, and is amenable to automation by transferring to the field of program verification many techniques developed in the field of program transformation.Comment: In Proceedings Festschrift for Dave Schmidt, arXiv:1309.455

Classes of Terminating Logic Programs

Termination of logic programs depends critically on the selection rule, i.e. the rule that determines which atom is selected in each resolution step. In this article, we classify programs (and queries) according to the selection rules for which they terminate. This is a survey and unified view on different approaches in the literature. For each class, we present a sufficient, for most classes even necessary, criterion for determining that a program is in that class. We study six classes: a program strongly terminates if it terminates for all selection rules; a program input terminates if it terminates for selection rules which only select atoms that are sufficiently instantiated in their input positions, so that these arguments do not get instantiated any further by the unification; a program local delay terminates if it terminates for local selection rules which only select atoms that are bounded w.r.t. an appropriate level mapping; a program left-terminates if it terminates for the usual left-to-right selection rule; a program exists-terminates if there exists a selection rule for which it terminates; finally, a program has bounded nondeterminism if it only has finitely many refutations. We propose a semantics-preserving transformation from programs with bounded nondeterminism into strongly terminating programs. Moreover, by unifying different formalisms and making appropriate assumptions, we are able to establish a formal hierarchy between the different classes.Comment: 50 pages. The following mistake was corrected: In figure 5, the first clause for insert was insert([],X,[X]

Deciding Full Branching Time Logic by Program Transformation

We present a method based on logic program transformation, for verifying Computation Tree Logic (CTL*) properties of finite state reactive systems. The finite state systems and the CTL* properties we want to verify, are encoded as logic programs on infinite lists. Our verification method consists of two steps. In the first step we transform the logic program that encodes the given system and the given property, into a monadic ω -program, that is, a stratified program defining nullary or unary predicates on infinite lists. This transformation is performed by applying unfold/fold rules that preserve the perfect model of the initial program. In the second step we verify the property of interest by using a proof method for monadic ω-program