@article{品野藤井2019, author = {品野, 勇治 and 藤井, 浩一}, title = {使ってみよう線形計画ソルバ}, volume = {64}, journal = {機関誌「オペレーションズ・リサーチ」}, number = {4}, pages = {238 -- 245}, year = {2019}, abstract = {本稿では,線形計画問題を解くソフトウェアである線形計画ソルバの標準的な利用方法と,原稿執筆時点で利用可能なソルバを可能な限り紹介する.筆者らはソルバ開発コミュニティの中で仕事をしているので,この機会に現在のソルバ開発現場の様子も紹介するとともに,各ソルバの特徴として何を紹介するべきかは,できる限り開発者,または,開発者に近い研究者に問い合わせて記述した.本稿は,多くの線形計画ソルバの選択肢がある中で,読者がもつ問題を解くのに最も適当なソルバを選択するための指針を与えることを主たる目的としている.}, language = {ja} } @article{KamadaYokoyamaShinanoetal.2019, author = {Kamada, Hiroki and Yokoyama, Ryohei and Shinano, Yuji and Wakui, Tetsuya}, title = {混合整数線形モデルによる エネルギー供給システムのロバスト最適設計 (階層的最適化手法の適用)}, journal = {エネルギー・資源学会第35回エネルギーシステム・経済・環境コンファレンス講演論文集}, pages = {163 -- 168}, year = {2019}, abstract = {A robust optimal design method of energy supply systems under uncertain energy demands has been proposed using a mixed- integer linear model for constituent equipment. A robust optimal design problem has been formulated as a three-level min-max- min optimization one by expressing uncertain energy demands by intervals, evaluating the robustness in a performance criterion based on the minimax regret criterion, and considering hierarchical relationships among design variables, uncertain energy demands, and operation variables. However, this method takes a long computation time, and thus it can be applied only to small-scale problems. In this paper, mixed-integer linear programming method in consideration of the hierarchical relationship between design and operation variables is applied to parts of the robust optimal design method which take long computation times to solve problems efficiently. In a case study, this revised method is applied to the robust optimal design of a cogeneration system with a simple configuration, and the validity and effectiveness of the method are ascertained.}, language = {ja} } @article{TakeuchiYokoyamaShinanoetal.2019, author = {Takeuchi, Kotaro and Yokoyama, Ryohei and Shinano, Yuji and Wakui, Tetsuya}, title = {エネルギー供給システムの 設計と運用の階層的関係を考慮した最適化 (運用を考慮した期間クラスタリングによるモデル縮約)}, journal = {エネルギー・資源学会第35回エネルギーシステム・経済・環境コンファレンス講演論文集}, pages = {169 -- 174}, year = {2019}, abstract = {To attain the highest performance of energy supply systems, it is necessary to determine design specifications optimally in consideration of operational strategies corresponding to seasonal and hourly variations in energy demands. Mixed-integer linear programming (MILP) methods have been applied widely to such multi-period optimal design problems. A hierarchical MILP method has been proposed to solve the problems very efficiently. In addition, by utilizing features of the hierarchical MILP method, a method of reducing model by clustering periods has also been proposed to search design solution candidates efficiently in the relaxed optimal design problem at the upper level. In this paper, by utilizing features of the hierarchical MILP method, a method of clustering periods is proposed based on the optimal operational strategies of energy supply systems obtained by solving the relaxed optimal design problem. As a case study, the method is applied to the optimal design of a gas turbine cogeneration system, and it is clarified that the method is effective to enhance the computation efficiency in comparison with a conventional method of clustering periods regularly.}, language = {ja} } @article{YokoyamaShinanoTakeuchietal.2019, author = {Yokoyama, Ryohei and Shinano, Yuji and Takeuchi, Kotaro and Wakui, Tetsuya}, title = {エネルギー供給システムの設計および運用の 階層的関係を考慮した最適化 (モデル縮約のための期間クラスタリング手法の比較)}, journal = {第38回エネルギー・資源学会研究発表会講演論文集}, pages = {109 -- 114}, year = {2019}, abstract = {Mixed-integer linear programming (MILP) methods have been applied widely to optimal design of energy supply systems. A hierarchical MILP method has been proposed to solve such optimal design problems efficiently. In addition, some strategies have been proposed to enhance the computation efficiency furthermore. As one of the strategies, a method of reducing model by time aggregation has been proposed to search design candidates efficiently in the relaxed optimal design problem at the upper level. In this paper, three clustering methods are applied to time aggregation and compared with one another in terms of the computation efficiency. Especially, the k-medoids method is applied newly in addition to the time-series and operation-based methods applied previously. A case study is conducted on the optimal design of a gas turbine cogeneration system for district energy supply. Through the study, it turns out the k-medoids method is effective to shorten the computation time as compared with the time-series method, although it is necessary to set the number of clusters artifically in both the methods. It also turns out that the operation-based method is more effective than the k-medoids method in terms of the computation efficiency even with the number of clusters set automatically.}, language = {ja} } @article{YokoyamaShinanoWakayamaetal.2019, author = {Yokoyama, Ryohei and Shinano, Yuji and Wakayama, Yuki and Wakui, Tetsuya}, title = {Model reduction by time aggregation for optimal design of energy supply systems by an MILP hierarchical branch and bound method}, volume = {181}, journal = {Energy}, pages = {782 -- 792}, year = {2019}, abstract = {Mixed-integer linear programming (MILP) methods have been applied widely to optimal design of en- ergy supply systems in consideration of multi-period operation. A hierarchical MILP method has been proposed to solve such optimal design problems efficiently. An original problem has been solved by dividing it into a relaxed optimal design problem at the upper level and optimal operation problems which are independent of one another at the lower level. In addition, some strategies have been pro- posed to enhance the computation efficiency furthermore. In this paper, a method of reducing model by time aggregation is proposed as a novel strategy to search design candidates efficiently in the relaxed optimal design problem at the upper level. In addition, the previous strategies are modified in accor- dance with the novel strategy. This method is realized only by clustering periods and averaging energy demands for clustered periods, while it guarantees to derive the optimal solution. Thus, it may decrease the computation time at the upper level. Through a case study on the optimal design of a gas turbine cogeneration system, it is clarified how the model reduction is effective to enhance the computation efficiency in comparison and combination with the modified previous strategies.}, language = {en} } @article{YokoyamaShinanoTakeuchietal.2019, author = {Yokoyama, Ryohei and Shinano, Yuji and Takeuchi, Kotaro and Wakui, Tetsuya}, title = {Operation-based time-period clustering for optimal design of energy supply systems by a hierarchical MILP method}, journal = {THE 32ND INTERNATIONAL CONFERENCE ON EFFICIENCY, COST, OPTIMIZATION, SIMULATION AND ENVIRONMENTAL IMPACT OF ENERGY SYSTEMS(ECOS 2019)}, pages = {527 -- 539}, year = {2019}, abstract = {Mixed-integer linear programming (MILP) methods have been applied widely to optimal design of energy supply systems. A hierarchical MILP method has been proposed to solve such optimal design problems efficiently. In addition, some strategies have been proposed to enhance the computation efficiency furthermore. As one of the strategies, a method of reducing model by time aggregation has been proposed to search design candidates efficiently in the relaxed optimal design problem at the upper level. In this paper, a method of clustering periods has been proposed based on the optimal operational strategies of the systems to avoid a large decrease in the lower bound for the optimal value of the objective function by model reduction. This method has been realized only by solving the relaxed optimal design problem at the upper level in advance. The method can decrease the number of operation variables and constraints at the upper level, and thus can decrease the computation time at the upper level. Through a case study on the optimal design of a gas turbine cogeneration system, it is clarified how the proposed clustering method is effective to enhance the computation efficiency in comparison with the conventional one which clusters periods regularly in time series.}, language = {en} } @article{YokoyamaShinanoWakui2019, author = {Yokoyama, Ryohei and Shinano, Yuji and Wakui, Tetsuya}, title = {Evaluation of Design Alternatives for a Gas Turbine Cogeneration Plant Based on Multiobjective K-Best Solutions}, journal = {International Conference on Power Engineering-2019}, pages = {1112 -- 1117}, year = {2019}, abstract = {To realize the best performance in energy supply, it is an important task to determine types, capacities, and numbers of energy conversion equipment appropriately. It is also necessary to take account of seasonal and hourly variations in energy demands and corresponding operational strategies of equipment. The mixed-integer linear programming (MILP) method has been utilized widely to derive the optimal solution for such a design problem. From the design viewpoint, it is important to generate not only the optimal solution but also suboptimal ones which follow the optimal one without omission, what are called K-best solutions. In this paper, an MILP method utilizing the hierarchical relationship between design and operation variables is applied along with some strategies to efficiently drive K-best solutions of a multiobjective optimal design problem of a gas turbine cogeneration system for district energy supply. The annual total cost and primary energy consumption are adopted as the objective functions to be minimized. A case study is conducted, and K-best solutions with an allowable increase in the value of the combined objective function are derived for each value of the weight for the annual total cost. Through the study, it is clarified how the weight affects the computation time, the number of the K-best solutions, and the design specifications and the values of the objective functions for the K-best solutions.}, language = {en} } @article{YokoyamaShinanoTaniguchietal.2019, author = {Yokoyama, Ryohei and Shinano, Yuji and Taniguchi, Syusuke and Wakui, Tetsuya}, title = {Search for K-best solutions in optimal design of energy supply systems by an extended MILP hierarchical branch and bound method}, volume = {184}, journal = {Energy}, doi = {https://doi.org/10.1016/j.energy.2018.02.077}, pages = {45 -- 57}, year = {2019}, abstract = {For the purpose of making a decision in the optimal design of an energy supply system, it is important to investigate not only the optimal solution but also suboptimal ones which follow the optimal one without any omissions, what are called K-best solutions. In this paper, a mixed-integer linear programming method utilizing the hierarchical relationship between design and operation variables proposed previ- ously is extended to search the K-best solutions very efficiently. In addition, methods for updating the incumbents are incorporated into the extended method for three options for the criterion set newly in deriving the K-best solutions. This extended method is implemented into open and commercial MILP solvers, and is applied to illustrative and practical case studies, respectively, on the optimal design of cogeneration systems. Through the studies, it turns out that the proposed method is much superior in terms of solution optimality and computation efficiency to a conventional method, and that the computation efficiency to derive one of the K-best solutions by the proposed method increases with the number of K-best solutions. In addition, features of the K-best solutions in the value of objective function are clarified.}, language = {en} } @article{JinLeFukumoto2019, author = {Jin, Liangbing and Le, Thi Thai and Fukumoto, Yasuhide}, title = {Frictional effect on stability of discontinuity interface in tangential velocity of a shallow-water flow}, volume = {383}, journal = {Physics Letters A}, number = {26}, doi = {10.1016/j.physleta.2019.125839}, pages = {125839}, year = {2019}, abstract = {We examine a frictional effect on the linear stability of an interface of discontinuity in tangential velocity. The fluid is moving with uniform velocity U in a region but is at rest in the other, and the bottom surface is assumed to exert drag force, quadratic in velocity, on the thin fluid layer. In the absence of the drag, the instability of the Kelvin-Helmholtz type is suppressed for U>√8 c, with c being the propagating speed of the gravity wave. We find by asymptotic analyses for both small and large values of the drag strength that the drag, regardless of its strength, makes the flow unstable for the whole range of the Froude number U/c.}, language = {en} } @article{Le2019, author = {Le, Thi Thai}, title = {Kelvin-Helmholtz instability in a shallow-water flow with a finite width}, volume = {60}, journal = {Journal of Mathematical Physics}, number = {1}, publisher = {AIP Publishing}, doi = {10.1063/1.5126321}, pages = {123101}, year = {2019}, abstract = {We examine an effect of side walls on the linear stability of an interface of tangential-velocity discontinuity in shallow-water flow. The flow is pure horizontal in the plane xy, and the fluid is bounded in a finite width 2d in the y- direction. In region 0 < y < d, the fluid is moving with uniform velocity U but is at rest for -d < y < 0. Without side walls, the flow is unstable for a velocity difference U<√8c U < √8 c, with c being the velocity of gravity waves. In this work, we show that if the velocity difference U is smaller than 2c, the interface is always destabilized, also known as the flow is unstable. The unstable region of an infinite width model is shrunken by the effects of side walls in the case of narrow width, while there is no range for the Froude number for stabilization in the case of large width. These results play an important role in predicting the wave propagations and have a wide application in the fields of industry. As a result of the interaction of waves and the mean flow boundary, the flow is unstable, which is caused by a decrease in the kinetic energy of disturbance.}, language = {en} } @article{SchienleMaristanydelasCasasBlanco2019, author = {Schienle, Adam and Maristany de las Casas, Pedro and Blanco, Marco}, title = {A Priori Search Space Pruning in the Flight Planning Problem}, issn = {1438-0064}, doi = {https://doi.org/10.4230/OASIcs.ATMOS.2019.8}, year = {2019}, abstract = {We study the Flight Planning Problem for a single aircraft, where we look for a minimum cost path in the airway network, a directed graph. Arc evaluation, such as weather computation, is computationally expensive due to non-linear functions, but required for exactness. We propose several pruning methods to thin out the search space for Dijkstra's algorithm before the query commences. We do so by using innate problem characteristics such as an aircraft's tank capacity, lower and upper bounds on the total costs, and in particular, we present a method to reduce the search space even in the presence of regional crossing costs. We test all pruning methods on real-world instances, and show that incorporating crossing costs into the pruning process can reduce the number of nodes by 90\\% in our setting.}, language = {en} } @article{YokoyamaShinanoWakayamaetal.2019, author = {Yokoyama, Ryohei and Shinano, Yuji and Wakayama, Yuki and Wakui, Tetsuya}, title = {Model reduction by time aggregation for optimal design of energy supply systems by an MILP hierarchical branch and bound method}, volume = {181}, journal = {Energy}, doi = {https://doi.org/10.1016/j.energy.2019.04.066}, pages = {782 -- 792}, year = {2019}, abstract = {Mixed-integer linear programming (MILP) methods have been applied widely to optimal design of energy supply systems in consideration of multi-period operation. A hierarchical MILP method has been proposed to solve such optimal design problems efficiently. An original problem has been solved by dividing it into a relaxed optimal design problem at the upper level and optimal operation problems which are independent of one another at the lower level. In addition, some strategies have been proposed to enhance the computation efficiency furthermore. In this paper, a method of reducing model by time aggregation is proposed as a novel strategy to search design candidates efficiently in the relaxed optimal design problem at the upper level. In addition, the previous strategies are modified in accordance with the novel strategy. This method is realized only by clustering periods and averaging energy demands for clustered periods, while it guarantees to derive the optimal solution. Thus, it may decrease the computation time at the upper level. Through a case study on the optimal design of a gas turbine cogeneration system, it is clarified how the model reduction is effective to enhance the computation efficiency in comparison and combination with the modified previous strategies.}, language = {en} } @article{GamrathGleixnerKochetal.2019, author = {Gamrath, Gerald and Gleixner, Ambros and Koch, Thorsten and Miltenberger, Matthias and Kniasew, Dimitri and Schl{\"o}gel, Dominik and Martin, Alexander and Weninger, Dieter}, title = {Tackling Industrial-Scale Supply Chain Problems by Mixed-Integer Programming}, volume = {37}, journal = {Journal of Computational Mathematics}, doi = {10.4208/jcm.1905-m2019-0055}, pages = {866 -- 888}, year = {2019}, abstract = {The modeling flexibility and the optimality guarantees provided by mixed-integer programming greatly aid the design of robust and future-proof decision support systems. The complexity of industrial-scale supply chain optimization, however, often poses limits to the application of general mixed-integer programming solvers. In this paper we describe algorithmic innovations that help to ensure that MIP solver performance matches the complexity of the large supply chain problems and tight time limits encountered in practice. Our computational evaluation is based on a diverse set, modeling real-world scenarios supplied by our industry partner SAP.}, language = {en} } @article{TempLabuzNegreteetal.2019, author = {Temp, Julia and Labuz, Dominika and Negrete, Roger and Sunkara, Vikram and Machelska, Halina}, title = {Pain and knee damage in male and female mice in the medial meniscal transection-induced osteoarthritis}, journal = {Osteoarthritis and Cartilage}, doi = {10.1016/j.joca.2019.11.003}, year = {2019}, language = {en} } @article{Sunkara2019, author = {Sunkara, Vikram}, title = {On the Properties of the Reaction Counts Chemical Master Equation}, volume = {21}, journal = {Entropy}, number = {6}, doi = {10.3390/e21060607}, pages = {607}, year = {2019}, abstract = {The reaction counts chemical master equation (CME) is a high-dimensional variant of the classical population counts CME. In the reaction counts CME setting, we count the reactions which have fired over time rather than monitoring the population state over time. Since a reaction either fires or not, the reaction counts CME transitions are only forward stepping. Typically there are more reactions in a system than species, this results in the reaction counts CME being higher in dimension, but simpler in dynamics. In this work, we revisit the reaction counts CME framework and its key theoretical results. Then we will extend the theory by exploiting the reactions counts' forward stepping feature, by decomposing the state space into independent continuous-time Markov chains (CTMC). We extend the reaction counts CME theory to derive analytical forms and estimates for the CTMC decomposition of the CME. This new theory gives new insights into solving hitting times-, rare events-, and a priori domain construction problems.}, language = {en} } @article{HaaseSunkaraKohletal.2019, author = {Haase, Tobias and Sunkara, Vikram and Kohl, Benjamin and Meier, Carola and Bußmann, Patricia and Becker, Jessica and Jagielski, Michal and von Kleist, Max and Ertel, Wolfgang}, title = {Discerning the spatio-temporal disease patterns of surgically induced OA mouse models}, volume = {14}, journal = {PLOS One}, number = {4}, publisher = {PLOS One}, doi = {10.1371/journal.pone.0213734}, year = {2019}, abstract = {Osteoarthritis (OA) is the most common cause of disability in ageing societies, with no effective therapies available to date. Two preclinical models are widely used to validate novel OA interventions (MCL-MM and DMM). Our aim is to discern disease dynamics in these models to provide a clear timeline in which various pathological changes occur. OA was surgically induced in mice by destabilisation of the medial meniscus. Analysis of OA progression revealed that the intensity and duration of chondrocyte loss and cartilage lesion formation were significantly different in MCL-MM vs DMM. Firstly, apoptosis was seen prior to week two and was narrowly restricted to the weight bearing area. Four weeks post injury the magnitude of apoptosis led to a 40-60\% reduction of chondrocytes in the non-calcified zone. Secondly, the progression of cell loss preceded the structural changes of the cartilage spatio-temporally. Lastly, while proteoglycan loss was similar in both models, collagen type II degradation only occurred more prominently in MCL-MM. Dynamics of chondrocyte loss and lesion formation in preclinical models has important implications for validating new therapeutic strategies. Our work could be helpful in assessing the feasibility and expected response of the DMM- and the MCL-MM models to chondrocyte mediated therapies.}, language = {en} } @article{KlusHusicMollenhaueretal.2019, author = {Klus, Stefan and Husic, Brooke E. and Mollenhauer, Mattes and Noe, Frank}, title = {Kernel methods for detecting coherent structures in dynamical data}, volume = {29}, journal = {Chaos: An Interdisciplinary Journal of Nonlinear Science}, number = {12}, doi = {10.1063/1.5100267}, year = {2019}, language = {en} } @article{AlchikhConradMaetal.2019, author = {Alchikh, Maren and Conrad, Tim and Ma, Xiaolin and Broberg, Eeva K. and Penttinen, P. and Reiche, J. and Biere, Barbara and Schweiger, Brunhilde and Rath, Barbara and Hoppe, Christian}, title = {Are we missing respiratory viral infections in infants and children? Comparison of a hospital-based quality management system with standard of care}, volume = {25}, journal = {Clinical Microbiology and Infection}, number = {3}, issn = {1469-0691}, doi = {10.1016/j.cmi.2018.05.023}, pages = {380.e9 -- 380.e16}, year = {2019}, language = {en} } @article{KoltaiLiePlonka2019, author = {Koltai, P{\´e}ter and Lie, Han Cheng and Plonka, Martin}, title = {Fr{\´e}chet differentiable drift dependence of Perron-Frobenius and Koopman operators for non-deterministic dynamics}, volume = {32}, journal = {Nonlinearity}, number = {11}, doi = {10.1088/1361-6544/ab1f2a}, pages = {4232 -- 4257}, year = {2019}, abstract = {We prove the Fr{\´e}chet differentiability with respect to the drift of Perron-Frobenius and Koopman operators associated to time-inhomogeneous ordinary stochastic differential equations. This result relies on a similar differentiability result for pathwise expectations of path functionals of the solution of the stochastic differential equation, which we establish using Girsanov's formula. We demonstrate the significance of our result in the context of dynamical systems and operator theory, by proving continuously differentiable drift dependence of the simple eigen- and singular values and the corresponding eigen- and singular functions of the stochastic Perron-Frobenius and Koopman operators.}, language = {en} } @article{GoetschelWeiser2019, author = {G{\"o}tschel, Sebastian and Weiser, Martin}, title = {Compression Challenges in Large Scale Partial Differential Equation Solvers}, volume = {12}, journal = {Algorithms}, number = {9}, doi = {10.3390/a12090197}, pages = {197}, year = {2019}, abstract = {Solvers for partial differential equations (PDEs) are one of the cornerstones of computational science. For large problems, they involve huge amounts of data that need to be stored and transmitted on all levels of the memory hierarchy. Often, bandwidth is the limiting factor due to the relatively small arithmetic intensity, and increasingly due to the growing disparity between computing power and bandwidth. Consequently, data compression techniques have been investigated and tailored towards the specific requirements of PDE solvers over the recent decades. This paper surveys data compression challenges and discusses examples of corresponding solution approaches for PDE problems, covering all levels of the memory hierarchy from mass storage up to the main memory. We illustrate concepts for particular methods, with examples, and give references to alternatives.}, language = {en} }