Solving Hard Computational Problems Efficiently: Asymptotic Parametric Complexity 3-Coloring Algorithm

Many practical problems in almost all scientific and technological disciplines have been classified as computationally hard (NP-hard or even NP-complete). In life sciences, combinatorial optimization problems frequently arise in molecular biology, e.g., genome sequencing; global alignment of multiple genomes; identifying siblings or discovery of dysregulated pathways.In almost all of these problems, there is the need for proving a hypothesis about certain property of an object that can be present only when it adopts some particular admissible structure (an NP-certificate) or be absent (no admissible structure), however, none of the standard approaches can discard the hypothesis when no solution can be found, since none can provide a proof that there is no admissible structure. This article presents an algorithm that introduces a novel type of solution method to "efficiently" solve the graph 3-coloring problem; an NP-complete problem. The proposed method provides certificates (proofs) in both cases: present or absent, so it is possible to accept or reject the hypothesis on the basis of a rigorous proof. It provides exact solutions and is polynomial-time (i.e., efficient) however parametric. The only requirement is sufficient computational power, which is controlled by the parameter $\alpha\in\mathbb{N}$. Nevertheless, here it is proved that the probability of requiring a value of $\alpha>k$ to obtain a solution for a random graph decreases exponentially: $P(\alpha>k) \leq 2^{-(k+1)}$, making tractable almost all problem instances. Thorough experimental analyses were performed. The algorithm was tested on random graphs, planar graphs and 4-regular planar graphs. The obtained experimental results are in accordance with the theoretical expected results.Comment: Working pape

Scalable partitioning for parallel position based dynamics

We introduce a practical partitioning technique designed for parallelizing Position Based Dynamics, and exploiting the ubiquitous multi-core processors present in current commodity GPUs. The input is a set of particles whose dynamics is influenced by spatial constraints. In the initialization phase, we build a graph in which each node corresponds to a constraint and two constraints are connected by an edge if they influence at least one common particle. We introduce a novel greedy algorithm for inserting additional constraints (phantoms) in the graph such that the resulting topology is q-colourable, where ˆ qˆ ≥ 2 is an arbitrary number. We color the graph, and the constraints with the same color are assigned to the same partition. Then, the set of constraints belonging to each partition is solved in parallel during the animation phase. We demonstrate this by using our partitioning technique; the performance hit caused by the GPU kernel calls is significantly decreased, leaving unaffected the visual quality, robustness and speed of serial position based dynamics

RASCAL: calculation of graph similarity using maximum common edge subgraphs

A new graph similarity calculation procedure is introduced for comparing labeled graphs. Given a minimum similarity threshold, the procedure consists of an initial screening process to determine whether it is possible for the measure of similarity between the two graphs to exceed the minimum threshold, followed by a rigorous maximum common edge subgraph (MCES) detection algorithm to compute the exact degree and composition of similarity. The proposed MCES algorithm is based on a maximum clique formulation of the problem and is a significant improvement over other published algorithms. It presents new approaches to both lower and upper bounding as well as vertex selection

Magic-State Functional Units: Mapping and Scheduling Multi-Level Distillation Circuits for Fault-Tolerant Quantum Architectures

Quantum computers have recently made great strides and are on a long-term path towards useful fault-tolerant computation. A dominant overhead in fault-tolerant quantum computation is the production of high-fidelity encoded qubits, called magic states, which enable reliable error-corrected computation. We present the first detailed designs of hardware functional units that implement space-time optimized magic-state factories for surface code error-corrected machines. Interactions among distant qubits require surface code braids (physical pathways on chip) which must be routed. Magic-state factories are circuits comprised of a complex set of braids that is more difficult to route than quantum circuits considered in previous work [1]. This paper explores the impact of scheduling techniques, such as gate reordering and qubit renaming, and we propose two novel mapping techniques: braid repulsion and dipole moment braid rotation. We combine these techniques with graph partitioning and community detection algorithms, and further introduce a stitching algorithm for mapping subgraphs onto a physical machine. Our results show a factor of 5.64 reduction in space-time volume compared to the best-known previous designs for magic-state factories.Comment: 13 pages, 10 figure

Solving constraint-satisfaction problems with distributed neocortical-like neuronal networks

Finding actions that satisfy the constraints imposed by both external inputs and internal representations is central to decision making. We demonstrate that some important classes of constraint satisfaction problems (CSPs) can be solved by networks composed of homogeneous cooperative-competitive modules that have connectivity similar to motifs observed in the superficial layers of neocortex. The winner-take-all modules are sparsely coupled by programming neurons that embed the constraints onto the otherwise homogeneous modular computational substrate. We show rules that embed any instance of the CSPs planar four-color graph coloring, maximum independent set, and Sudoku on this substrate, and provide mathematical proofs that guarantee these graph coloring problems will convergence to a solution. The network is composed of non-saturating linear threshold neurons. Their lack of right saturation allows the overall network to explore the problem space driven through the unstable dynamics generated by recurrent excitation. The direction of exploration is steered by the constraint neurons. While many problems can be solved using only linear inhibitory constraints, network performance on hard problems benefits significantly when these negative constraints are implemented by non-linear multiplicative inhibition. Overall, our results demonstrate the importance of instability rather than stability in network computation, and also offer insight into the computational role of dual inhibitory mechanisms in neural circuits.Comment: Accepted manuscript, in press, Neural Computation (2018

Contemporary Methods for Graph Coloring as an Example of Discrete Optimization

This paper provides an insight into graph coloringapplication of the contemporary heuristic methods. It discusses avariety of algorithmic solutions for The Graph Coloring Problem(GCP) and makes recommendations for implementation. TheGCP is the NP-hard problem, which aims at finding the minimumnumber of colors for vertices in such a way, that none of twoadjacent vertices are marked with the same color.With the adventof multicore processing technology, the metaheuristic approachto solving GCP reemerged as means of discrete optimization. Toexplain the phenomenon of these methods, the author makes athorough survey of AI-based algorithms for GCP, while pointingout the main differences between all these techniques

Finding Optimal 2-Packing Sets on Arbitrary Graphs at Scale

A 2-packing set for an undirected graph $G=(V,E)$ is a subset $\mathcal{S} \subset V$ such that any two vertices $v_1,v_2 \in \mathcal{S}$ have no common neighbors. Finding a 2-packing set of maximum cardinality is a NP-hard problem. We develop a new approach to solve this problem on arbitrary graphs using its close relation to the independent set problem. Thereby, our algorithm red2pack uses new data reduction rules specific to the 2-packing set problem as well as a graph transformation. Our experiments show that we outperform the state-of-the-art for arbitrary graphs with respect to solution quality and also are able to compute solutions multiple orders of magnitude faster than previously possible. For example, we are able to solve 63% of our graphs to optimality in less than a second while the competitor for arbitrary graphs can only solve 5% of the graphs in the data set to optimality even with a 10 hour time limit. Moreover, our approach can solve a wide range of large instances that have previously been unsolved

Contemporary Methods for Graph Coloring as an Example of Discrete Optimization

This paper provides an insight into graph coloringapplication of the contemporary heuristic methods. It discusses avariety of algorithmic solutions for The Graph Coloring Problem(GCP) and makes recommendations for implementation. TheGCP is the NP-hard problem, which aims at finding the minimumnumber of colors for vertices in such a way, that none of twoadjacent vertices are marked with the same color.With the adventof multicore processing technology, the metaheuristic approachto solving GCP reemerged as means of discrete optimization. Toexplain the phenomenon of these methods, the author makes athorough survey of AI-based algorithms for GCP, while pointingout the main differences between all these techniques