Good Learning and Implicit Model Enumeration

MathSBML is an open-source, freely-downloadable Mathematica package that facilitates working with Systems Biology Markup Language (SBML) models. SBML is a toolneutral,computer-readable format for representing models of biochemical reaction networks, applicable to metabolic networks, cell-signaling pathways, genomic regulatory networks, and other modeling problems in systems biology that is widely supported by the systems biology community. SBML is based on XML, a standard medium for representing and transporting data that is widely supported on the internet as well as in computational biology and bioinformatics. Because SBML is tool-independent, it enables model transportability, reuse, publication and survival. In addition to MathSBML, a number of other tools that support SBML model examination and manipulation are provided on the sbml.org website, including libSBML, a C/C++ library for reading SBML models; an SBML Toolbox for MatLab; file conversion programs; an SBML model validator and visualizer; and SBML specifications and schemas. MathSBML enables SBML file import to and export from Mathematica as well as providing an API for model manipulation and simulation

Learning Task Specifications from Demonstrations

Real world applications often naturally decompose into several sub-tasks. In many settings (e.g., robotics) demonstrations provide a natural way to specify the sub-tasks. However, most methods for learning from demonstrations either do not provide guarantees that the artifacts learned for the sub-tasks can be safely recombined or limit the types of composition available. Motivated by this deficit, we consider the problem of inferring Boolean non-Markovian rewards (also known as logical trace properties or specifications) from demonstrations provided by an agent operating in an uncertain, stochastic environment. Crucially, specifications admit well-defined composition rules that are typically easy to interpret. In this paper, we formulate the specification inference task as a maximum a posteriori (MAP) probability inference problem, apply the principle of maximum entropy to derive an analytic demonstration likelihood model and give an efficient approach to search for the most likely specification in a large candidate pool of specifications. In our experiments, we demonstrate how learning specifications can help avoid common problems that often arise due to ad-hoc reward composition.Comment: NIPS 201

Understanding the complexity of #SAT using knowledge compilation

Two main techniques have been used so far to solve the #P-hard problem #SAT. The first one, used in practice, is based on an extension of DPLL for model counting called exhaustive DPLL. The second approach, more theoretical, exploits the structure of the input to compute the number of satisfying assignments by usually using a dynamic programming scheme on a decomposition of the formula. In this paper, we make a first step toward the separation of these two techniques by exhibiting a family of formulas that can be solved in polynomial time with the first technique but needs an exponential time with the second one. We show this by observing that both techniques implicitely construct a very specific boolean circuit equivalent to the input formula. We then show that every beta-acyclic formula can be represented by a polynomial size circuit corresponding to the first method and exhibit a family of beta-acyclic formulas which cannot be represented by polynomial size circuits corresponding to the second method. This result shed a new light on the complexity of #SAT and related problems on beta-acyclic formulas. As a byproduct, we give new handy tools to design algorithms on beta-acyclic hypergraphs

Balancing Scalability and Uniformity in SAT Witness Generator

Constrained-random simulation is the predominant approach used in the industry for functional verification of complex digital designs. The effectiveness of this approach depends on two key factors: the quality of constraints used to generate test vectors, and the randomness of solutions generated from a given set of constraints. In this paper, we focus on the second problem, and present an algorithm that significantly improves the state-of-the-art of (almost-)uniform generation of solutions of large Boolean constraints. Our algorithm provides strong theoretical guarantees on the uniformity of generated solutions and scales to problems involving hundreds of thousands of variables.Comment: This is a full version of DAC 2014 pape