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Abstract-A sensor network localization problem is to determine the positions of the sensor nodes in a network given incomplete and inaccurate pairwise distance measurements. Such distance data may be acquired by a sensor node by communicating with its neighbors. We describe a general semidefinite programming (SDP) based approach for solving the graph realization problem, of which the sensor network localization problems is a special case. We investigate the performance of this method on problems with noisy distance data. Error bounds are derived from the SDP formulation. The sources of estimation error in the SDP formulation are identified.The SDP solution usually has a rank higher than the underlying physical space, which when projected onto the lower dimensional space generally results in high estimation error. We describe two improvements to ameliorate such a difficulty. First, we propose a regularization term in the objective function that can help to reduce the rank of the SDP solution. Second, we use the points estimated from the SDP solution as the initial iterate for a gradient-descent method to further refine the estimated points. A lower bound obtained from the optimal SDP objective value can be used to check the solution quality. Experimental results are presented to validate our methods and show that they outperform existing SDP methods.

Abstract. We consider a Newton-CG augmented Lagrangian method for solving semidefinite programming (SDP) problems from the perspective of approximate semismooth Newton methods. In order to analyze the rate of convergence of our proposed method, we characterize the Lipschitz continuity of the corresponding solution mapping at the origin. For the inner problems, we show that the positive definiteness of the generalized Hessian of the objective function in these inner problems, a key property for ensuring the efficiency of using an inexact semismooth Newton-CG method to solve the inner problems, is equivalent to the constraint nondegeneracy of the corresponding dual problems. Numerical experiments on a variety of large scale SDPs with the matrix dimension n up to 4, 110 and the number of equality constraints m up to 2, 156, 544 show that the proposed method is very efficient. We are also able to solve the SDP problem fap36 (with n = 4, 110 and m = 1, 154, 467) in the Seventh DIMACS Implementation Challenge much more accurately than previous attempts.

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In this paper, we present a majorized semismooth Newton-CG augmented Lagrangian method, called SDPNAL+, for semidefinite programming (SDP) with partial or full nonnegative constraints on the matrix variable. SDPNAL+ is a much enhanced version of SDPNAL introduced by Zhao et al. (SIAM J Optim 20:1737-1765 for solving generic SDPs. SDPNAL works very efficiently for nondegenerate SDPs but may encounter numerical difficulty for degenerate ones. Here we tackle this numerical difficulty by employing a majorized semismooth Newton-CG augmented Lagrangian method coupled with a convergent 3-block alternating direction method of multipliers introduced recently by Sun et al. (SIAM J Optim, to appear). Numerical results for various large scale SDPs with or without nonnegative constraints show that the proposed method is not only fast but also robust in obtaining accurate solutions. It outperforms, by a significant margin, two other competitive publicly available first order methods based codes: (1) an alternating direction method of D. 123 L. Yang et al. multipliers based solver called SDPAD by Wen et al. (Math Program Comput 2:203-230, 2010) and (2) a two-easy-block-decomposition hybrid proximal extragradient method called 2EBD-HPE by Monteiro et al. (Math Program Comput 1-48, 2014). In contrast to these two codes, we are able to solve all the 95 difficult SDP problems arising from the relaxations of quadratic assignment problems tested in SDPNAL to an accuracy of 10 −6 efficiently, while SDPAD and 2EBD-HPE successfully solve 30 and 16 problems, respectively. In addition, SDPNAL+ appears to be the only viable method currently available to solve large scale SDPs arising from rank-1 tensor approximation problems constructed by Nie and Wang (SIAM J Matrix Anal Appl 35:1155-1179. The largest rank-1 tensor approximation problem we solved (in about 14.5 h) is nonsym(21,4), in which its resulting SDP problem has matrix dimension n = 9261 and the number of equality constraints m = 12,326,390.

For a long period of time, scientists studied genomes while assuming they are linear. Recently, chromosome conformation capture (3C)-based technologies, such as Hi-C, have been developed that provide the loci contact frequencies among loci pairs in a genome-wide scale. The technology unveiled that two far-apart loci can interact in the tested genome. It indicated that the tested genome forms a three-dimensional (3D) chromosomal structure within the nucleus. With the available Hi-C data, our next challenge is to model the 3D chromosomal structure from the 3C-derived data computationally. This article presents a deterministic method called ChromSDE, which applies semi-definite programming techniques to find the best structure fitting the observed data and uses golden section search to find the correct parameter for converting the contact frequency to spatial distance. Further, we develop a measure called consensus index to indicate if the Hi-C data corresponds to a single structure or a mixture of structures. To the best of our knowledge, ChromSDE is the only method that can guarantee recovering the correct structure in the noise-free case. In addition, we prove that the parameter of conversion from contact frequency to spatial distance will change under different resolutions theoretically and empirically. Using simulation data and real Hi-C data, we showed that ChromSDE is much more accurate and robust than existing methods. Finally, we demonstrated that interesting biological findings can be uncovered from our predicted 3D structure.

This paper is devoted to the design of an efficient and convergent semi-proximal alternating direction method of multipliers (ADMM) for finding a solution of low to medium accuracy to convex quadratic conic programming and related problems. For this class of problems, the convergent two block semi-proximal ADMM can be employed to solve their primal form in a straightforward way. However, it is known that it is more efficient to apply the directly extended multi-block semi-proximal ADMM, though its convergence is not guaranteed, to the dual form of these problems. Naturally, one may ask the following question: can one construct a convergent multi-block semi-proximal ADMM that is more efficient than the directly extended semi-proximal ADMM? Indeed, for linear conic programming with 4-block constraints this has been shown to be achievable in a recent paper by Sun, Toh and Yang [arXiv preprint arXiv:1404.5378, (2014]. Inspired by the aforementioned work and with the convex quadratic conic programming in mind, we propose a Schur complement based convergent semi-proximal ADMM for solving convex programming problems, with a coupling linear equality constraint, whose objective function is the sum of two proper closed convex functions plus an arbitrary number of convex quadratic or linear functions. Our convergent semi-proximal ADMM is particularly suitable for solving convex quadratic semidefinite programming (QSDP) with constraints consisting of linear equalities, a positive semidefinite cone and a simple convex polyhedral set. The efficiency of our proposed algorithm is demonstrated by numerical experiments on various examples including QSDP.