A lower bound on CNF encodings of the at-most-one constraint

Constraint "at most one" is a basic cardinality constraint which requires that at most one of its $n$ boolean inputs is set to $1$. This constraint is widely used when translating a problem into a conjunctive normal form (CNF) and we investigate its CNF encodings suitable for this purpose. An encoding differs from a CNF representation of a function in that it can use auxiliary variables. We are especially interested in propagation complete encodings which have the property that unit propagation is strong enough to enforce consistency on input variables. We show a lower bound on the number of clauses in any propagation complete encoding of the "at most one" constraint. The lower bound almost matches the size of the best known encodings. We also study an important case of 2-CNF encodings where we show a slightly better lower bound. The lower bound holds also for a related "exactly one" constraint.Comment: 38 pages, version 3 is significantly reorganized in order to improve readabilit

Diagnostic Approach for the Differentiation of the Pandemic Influenza A(H1N1)v Virus from Recent Human Influenza Viruses by Real-Time PCR

BACKGROUND: The current spread of pandemic influenza A(H1N1)v virus necessitates an intensified surveillance of influenza virus infections worldwide. So far, in many laboratories routine diagnostics were limited to generic influenza virus detection only. To provide interested laboratories with real-time PCR assays for type and subtype identification, we present a bundle of PCR assays with which any human influenza A and B virus can be easily identified, including assays for the detection of the pandemic A(H1N1)v virus. PRINCIPAL FINDINGS: The assays show optimal performance characteristics in their validation on plasmids containing the respective assay target sequences. All assays have furthermore been applied to several thousand clinical samples since 2007 (assays for seasonal influenza) and April 2009 (pandemic influenza assays), respectively, and showed excellent results also on clinical material. CONCLUSIONS: We consider the presented assays to be well suited for the detection and subtyping of circulating influenza viruses

Bounded Determinization of Timed Automata with Silent Transitions

Deterministic timed automata are strictly less expressive than their non-deterministic counterparts, which are again less expressive than those with silent transitions. As a consequence, timed automata are in general non-determinizable. This is unfortunate since deterministic automata play a major role in model-based testing, observability and implementability. However, by bounding the length of the traces in the automaton, effective determinization becomes possible. We propose a novel procedure for bounded determinization of timed automata. The procedure unfolds the automata to bounded trees, removes all silent transitions and determinizes via disjunction of guards. The proposed algorithms are optimized to the bounded setting and thus are more efficient and can handle a larger class of timed automata than the general algorithms. The approach is implemented in a prototype tool and evaluated on several examples. To our best knowledge, this is the first implementation of this type of procedure for timed automata.Comment: 25 page

QRAT+: Generalizing QRAT by a More Powerful QBF Redundancy Property

The QRAT (quantified resolution asymmetric tautology) proof system simulates virtually all inference rules applied in state of the art quantified Boolean formula (QBF) reasoning tools. It consists of rules to rewrite a QBF by adding and deleting clauses and universal literals that have a certain redundancy property. To check for this redundancy property in QRAT, propositional unit propagation (UP) is applied to the quantifier free, i.e., propositional part of the QBF. We generalize the redundancy property in the QRAT system by QBF specific UP (QUP). QUP extends UP by the universal reduction operation to eliminate universal literals from clauses. We apply QUP to an abstraction of the QBF where certain universal quantifiers are converted into existential ones. This way, we obtain a generalization of QRAT we call QRAT+. The redundancy property in QRAT+ based on QUP is more powerful than the one in QRAT based on UP. We report on proof theoretical improvements and experimental results to illustrate the benefits of QRAT+ for QBF preprocessing.Comment: preprint of a paper to be published at IJCAR 2018, LNCS, Springer, including appendi

SAT-Based Synthesis Methods for Safety Specs

Automatic synthesis of hardware components from declarative specifications is an ambitious endeavor in computer aided design. Existing synthesis algorithms are often implemented with Binary Decision Diagrams (BDDs), inheriting their scalability limitations. Instead of BDDs, we propose several new methods to synthesize finite-state systems from safety specifications using decision procedures for the satisfiability of quantified and unquantified Boolean formulas (SAT-, QBF- and EPR-solvers). The presented approaches are based on computational learning, templates, or reduction to first-order logic. We also present an efficient parallelization, and optimizations to utilize reachability information and incremental solving. Finally, we compare all methods in an extensive case study. Our new methods outperform BDDs and other existing work on some classes of benchmarks, and our parallelization achieves a super-linear speedup. This is an extended version of [5], featuring an additional appendix.Comment: Extended version of a paper at VMCAI'1

Generating Non-Linear Interpolants by Semidefinite Programming

Interpolation-based techniques have been widely and successfully applied in the verification of hardware and software, e.g., in bounded-model check- ing, CEGAR, SMT, etc., whose hardest part is how to synthesize interpolants. Various work for discovering interpolants for propositional logic, quantifier-free fragments of first-order theories and their combinations have been proposed. However, little work focuses on discovering polynomial interpolants in the literature. In this paper, we provide an approach for constructing non-linear interpolants based on semidefinite programming, and show how to apply such results to the verification of programs by examples.Comment: 22 pages, 4 figure

Invasive earthworms reduce chemical defense and increase herbivory and pathogen infection in native trees

Recent research shows that earthworms can alter defense traits of plants against herbivores and pathogens by affecting soil biochemistry. Yet, the effects of invasive earthworms on defense traits of native plants from previously earthworm-free ecosystems as well as the consequences for multitrophic interactions are virtually unknown. Here we use a combination of an observational study and a complementary experimental study to investigate the effects of invasive earthworms on leaf defense traits, herbivore damage and pathogen infection in two poplar tree species (Populus balsamifera and Populus tremuloides) native to North American boreal forests. Our observational study showed that earthworm invasion was associated with enhanced leaf herbivory (by leaf-chewing insects) in saplings of both tree species. However, we only detected significant shifts in the concentration of chemical defense compounds in response to earthworm invasion for P. balsamifera. Specifically, leaf phenolic concentrations, including salicinoids and catechin, were lower in P. balsamifera from earthworm-invaded sites. Our experimental study confirmed an earthworm-induced reduction in leaf defense levels in P. balsamifera for one of the defense compounds, tremulacin. The experimental study additionally showed that invasive earthworms reduced leaf dry matter content, potentially increasing leaf palatability, and enhanced susceptibility of trees to infection by a fungal pathogen, but not to aphid infestation, in the same tree species. Synthesis. Our results show that invasive earthworms can decrease the concentrations of some chemical defense compounds in P. balsamifera, which could make them susceptible to leaf-chewing insects. Such potential impacts of invasive earthworms are likely to have implications for tree survival and competition, native tree biodiversity and ecosystem functioning

Automatic Abstraction in SMT-Based Unbounded Software Model Checking

Software model checkers based on under-approximations and SMT solvers are very successful at verifying safety (i.e. reachability) properties. They combine two key ideas -- (a) "concreteness": a counterexample in an under-approximation is a counterexample in the original program as well, and (b) "generalization": a proof of safety of an under-approximation, produced by an SMT solver, are generalizable to proofs of safety of the original program. In this paper, we present a combination of "automatic abstraction" with the under-approximation-driven framework. We explore two iterative approaches for obtaining and refining abstractions -- "proof based" and "counterexample based" -- and show how they can be combined into a unified algorithm. To the best of our knowledge, this is the first application of Proof-Based Abstraction, primarily used to verify hardware, to Software Verification. We have implemented a prototype of the framework using Z3, and evaluate it on many benchmarks from the Software Verification Competition. We show experimentally that our combination is quite effective on hard instances.Comment: Extended version of a paper in the proceedings of CAV 201

Efficient Certified Resolution Proof Checking

We present a novel propositional proof tracing format that eliminates complex processing, thus enabling efficient (formal) proof checking. The benefits of this format are demonstrated by implementing a proof checker in C, which outperforms a state-of-the-art checker by two orders of magnitude. We then formalize the theory underlying propositional proof checking in Coq, and extract a correct-by-construction proof checker for our format from the formalization. An empirical evaluation using 280 unsatisfiable instances from the 2015 and 2016 SAT competitions shows that this certified checker usually performs comparably to a state-of-the-art non-certified proof checker. Using this format, we formally verify the recent 200 TB proof of the Boolean Pythagorean Triples conjecture

Incremental QBF Solving

We consider the problem of incrementally solving a sequence of quantified Boolean formulae (QBF). Incremental solving aims at using information learned from one formula in the process of solving the next formulae in the sequence. Based on a general overview of the problem and related challenges, we present an approach to incremental QBF solving which is application-independent and hence applicable to QBF encodings of arbitrary problems. We implemented this approach in our incremental search-based QBF solver DepQBF and report on implementation details. Experimental results illustrate the potential benefits of incremental solving in QBF-based workflows.Comment: revision (camera-ready, to appear in the proceedings of CP 2014, LNCS, Springer