Computer Physics Communications, Volume 182

Volume 182, Number 1, January 2011

Editorial

• 
  James J. Y. Hsu:
  Preface. 1

Plenary and Invited Papers

• 
  Kai Schneider, Salah Neffaa, Wouter J. T. Bos:
  A pseudo-spectral method with volume penalisation for magnetohydrodynamic turbulence in confined domains. 2-7
• 
  Vítor Duarte Teodoro, Rui Gomes Neves:
  Mathematical modelling in science and mathematics education. 8-10
• 
  Amanda S. Barnard:
  Useful equations for modeling the relative stability of common nanoparticle morphologies. 11-13
• 
  Tak-San Ho, Herschel A. Rabitz, Shih-I Chu:
  A general formulation of monotonically convergent algorithms in the control of quantum dynamics beyond the linear dipole interaction. 14-17
• 
  Dmitry A. Telnov, Shih-I Chu:
  Time-dependent generalized pseudospectral method for accurate treatment of multiphoton processes of diatomic molecules in intense laser fields. 18-20
• 
  Xiao-Min Tong, Nobuyuki Toshima:
  Time-dependent method in the laser-atom interactions. 21-23
• 
  Huey-Wen Lin, Saul D. Cohen, Liuming Liu, Nilmani Mathur, Kostas Orginos, André Walker-Loud:
  Heavy-baryon spectroscopy from lattice QCD. 24-26
• 
  A. P. Young, Sergey Knysh, Vadim N. Smelyanskiy:
  The complexity of the Quantum Adiabatic Algorithm. 27-28
• 
  Hendrick W. de Haan, Michel G. Gauthier, Mykyta V. Chubynsky, Gary W. Slater:
  The importance of introducing a waiting time for Lattice Monte Carlo simulations of a polymer translocation process. 29-32
• 
  Stefan Kesselheim, Marcello Sega, Christian Holm:
  Applying ICC^* to DNA translocation: Effect of dielectric boundaries. 33-35
• 
  Chi-Tin Shih, Yun-Yin Cheng, Stephen A. Wells, Ching-Ling Hsu, Rudolf A. Römer:
  Charge transport in cancer-related genes and early carcinogenesis. 36-38

Contributed Papers

• 
  Chih-Kai Yang:
  Exploring the interaction between the boron nitride nanotube and biological molecules. 39-42
• 
  Igor V. Solovyev:
  Realistic modeling of complex oxide materials. 43-45
• 
  Vidar Gudmundsson, Chi-Shung Tang, Cosmin Mihai Gainar, Valeriu Moldoveanu, Andrei Manolescu:
  Time-dependent magnetotransport in semiconductor nanostructures via the generalized master equation. 46-48
• 
  Kozo Hoshino, Takuya Yoshikawa, Shuji Munejiri:
  Pressure-induced structural change from low-density to high-density amorphous ice by molecular-dynamics simulations. 49-51
• 
  Tianxing Ma, Feiming Hu, Zhongbing Huang, Hai-Qing Lin:
  Magnetic correlation in the Hubbard model on a honeycomb lattice. 52-54
• 
  Dingping Li, B. Rosenstein, Shou Chen, H. H. Lin, Dan Berco:
  Glass transition and the replica symmetry breaking in vortex matter: MC study. 55-57
• 
  Shuji Munejiri, Fuyuki Shimojo, Kozo Hoshino:
  Real-space investigation of a transverse wave in a liquid system generated by a molecular-dynamics simulation. 58-61
• 
  K. H. Tsai, Ten-Ming Wu:
  Entropy of a model for liquid Ga: Contribution due to Friedel oscillations. 62-64
• 
  Chi-Shung Tang, Kristinn Torfason, Vidar Gudmundsson:
  Magnetotransport in a time-modulated double quantum point contact system. 65-67
• 
  C. H. Lee, S. C. Chen, C. K. Yang, Wan-Sheng Su, Min-Fa Lin:
  Low-energy electronic structures of nanotube-nanoribbon hybrid systems. 68-70
• 
  Chia-Hei Yang, Ching-Ling Hsu, Nan-Yow Chen, Chi-Tin Shih:
  Temporal dynamics of site percolation in nanoparticle assemblies. 71-73
• 
  Feiming Hu, Tianxing Ma, Hai-Qing Lin:
  Numerical study of geometrical frustration: From square to triangular lattices. 74-76
• 
  Jen-Hsien Wong, Bi-Ru Wu, Ming-Fa Lin:
  Electronic properties of rhombohedral graphite. 77-80
• 
  R. F. Hung, Dan Berco, I. Ya. Shapiro, Benjamin Shapiro, B. Rosenstein:
  Electrodynamics of type-II superconductor with periodic pinning array. 81-83
• 
  J. C. Tung, G. Y. Guo:
  An ab initio study of the magnetic and electronic properties of Fe, Co, and Ni nanowires on Cu(001) surface. 84-86
• 
  Shoichi Sakamoto, Hiroyoshi Tsuyuki, Mitsuyoshi Tomiya:
  Stochastic mechanics of electron transfer in graphene. 87-89
• 
  Naomi Hirayama, Akira Endo, Kazuhiro Fujita, Yasuhiro Hasegawa, Naomichi Hatano, Hiroaki Nakamura, Ryoen Shirasaki:
  Temperature distribution in nano-devices under a strong magnetic field. 90-92
• 
  Tay-Rong Chang, Horng-Tay Jeng, Chen-Shiung Hsue:
  Electronic structures of quasi-one-dimensional ferrimagnetic insulator Ca₃Co₂O₆. 93-95
• 
  Yiming Li, Hui-Wen Cheng, Ming-Hung Han:
  Quantum hydrodynamic simulation of discrete-dopant fluctuated physical quantities in nanoscale FinFET. 96-98
• 
  Wan-Sheng Su, Bi-Ru Wu, T. C. Leung:
  A first-principles study on the electromechanical effect of graphene nanoribbon. 99-102
• 
  Yoshiyuki Egami, Keita Yamada:
  First-principles study on quantum-transport properties of single molecule depending on adsorption conditions. 103-105
• 
  Cheng-Chien Chen, Brian Moritz, Chunjing Jia, Steve Johnston, A. P. Sorini, L.-Q. Lee, K. Ko, T. P. Devereaux:
  Numerical studies of photon-based spectroscopies on high-T_c superconductors. 106-108
• 
  Brian Moritz, T. P. Devereaux, James K. Freericks:
  Temporal response of nonequilibrium correlated electrons. 109-111
• 
  H. C. Kao, Meir Lewkowicz, Yevgeniy Korniyenko, B. Rosenstein:
  Dynamical approach to ballistic transport in graphene. 112-114
• 
  Nils Blümer, E. V. Gorelik:
  Quantum Monte Carlo simulations of antiferromagnetism in ultracold fermions on optical lattices within real-space dynamical mean-field theory. 115-118

Atom, Molecules and Optics (AMO)

• 
  Sabyasachi Kar, Yew Kam Ho:
  Resonance states of Ps^- using correlated wave functions. 119-121
• 
  Arijit Ghoshal, Yew Kam Ho:
  Doubly excited resonance states of two-electron systems in exponential cosine-screened Coulomb potentials. 122-124
• 
  C. Y. Lin, Yew Kam Ho:
  The photoionization of excited hydrogen atom in plasmas. 125-129
• 
  S. Paul, Yew Kam Ho:
  Solution of the generalized exponential cosine screened Coulomb potential. 130-133
• 
  M. Chane-Yook, J. Dubau:
  Update of UCL computer codes for the calculation of fine-structure electron-atom collision cross-section. 134-135
• 
  Ju-Tang Hsiao, Keh-Ning Huang:
  Applications of the relativistic equation of motion to photoionization of Mg-like ions. 136-139
• 
  Yun-Min Lee, T.-F. Jiang, Z.-Y. Su, Jong-Shinn Wu:
  Three-dimensional simulation of the femto-second pulsed laser interacting with a nitrogen molecule. 140-142
• 
  M.-C. Wu, Wei-Chih Liu:
  Non-perturbative time-dependent numerical simulation for electromagnetically induced transparency and slow light in three-level Lambda-type atoms. 143-145
• 
  Ying-Jun Jin, Xiao-Min Tong, Nobuyuki Toshima:
  Ionization of hydrogen molecular ions in an intense laser field via a resonant state. 146-148
• 
  Alexei Deinega, Ilya Valuev:
  Long-time behavior of PML absorbing boundaries for layered periodic structures. 149-151

Plasma/ Space Physics

• 
  S. W. Chau, S. Y. Lu, P. J. Wang:
  Modeling of axis-symmetric steam plasma flow in a non-transferred torch. 152-154
• 
  Jang-Yu Hsu:
  Relativistic theory of mode conversion at plasma frequency - the finite difference time domain simulation. 155-157
• 
  Yasutaro Nishimura:
  A perturbation method for guiding center orbit following calculations in the presence of Coulomb collisions. 158-160
• 
  Chieh-Tsan Hung, Yuan-Ming Chiu, Feng-Nan Hwang, Jong-Shinn Wu:
  Development of a parallel implicit solver of fluid modeling equations for gas discharges. 161-163
• 
  K.-W. Cheng, Chieh-Tsan Hung, M.-H. Chiang, Feng-Nan Hwang, Jong-Shinn Wu:
  One-dimensional simulation of nitrogen dielectric barrier discharge driven by a quasi-pulsed power source and its comparison with experiments. 164-166
• 
  Y.-M. Chiu, Chieh-Tsan Hung, Feng-Nan Hwang, M.-H. Chiang, Jong-Shinn Wu, S.-H. Chen:
  Effect of plasma chemistry on the simulation of helium atmospheric-pressure plasmas. 167-169
• 
  Matthew R. Smith, Chieh-Tsan Hung, Kun-Mo Lin, Jong-Shinn Wu, Jen-Perng Yu:
  Development of a semi-implicit fluid modeling code using finite-volume method based on Cartesian grids. 170-172
• 
  Xuefei Yuan, Stephen C. Jardin, David E. Keyes:
  Moving grids for magnetic reconnection via Newton-Krylov methods. 173-176
• 
  Ying-Yi Lo, Chung-Ming Ko, Chih-Yueh Wang:
  3D Magneto-hydrodynamic simulations of Parker instability with cosmic rays. 177-179
• 
  Alexei Pankin, Alexander Pletzer, Srinath Vadlamani, John R. Cary, Ammar Hakim, Scott Kruger, Mahmood Miah, Thomas D. Rognlien, Svetlana G. Shasharina, Glenn Bateman, Arnold Kritz, Tariq Rafiq:
  Simulation of anomalous transport in tokamaks using the FACETS code. 180-184

Complex Systems - Statistical Physics, Nonlinear Physics, Biological Physics, Biomaterials

• 
  Jiann-wien Hsu, Ding-wei Huang:
  Dynamics of citation distribution. 185-187
• 
  Gabriel Villalobos, Dorian L. Linero, José D. Muñoz:
  A statistical model of fracture for a 2D hexagonal mesh: The Cell Network Model of Fracture for the bamboo Guadua angustifolia. 188-191
• 
  Susumu Fujiwara, Daiki Funaoka, Takashi Itoh, Masato Hashimoto:
  Molecular dynamics simulation for phase behavior of amphiphilic solution. 192-194
• 
  Chi-Tin Shih, Hsuan-Wen Lin, Ann-Shyn Chiang:
  Statistical analysis and modeling of the temperature-dependent sleep behavior of drosophila. 195-197
• 
  J. L. Huang, H. J. Chen, H. C. Tseng:
  The flow of a reversible ratchet. 198-200
• 
  Hao-Yun Wu, Chung-I Chou, Jie-Jun Tseng:
  A simple marriage model for the power-law behaviour in the frequency distributions of family names. 201-204
• 
  Yu-Cih Peng, Chung-I Chou:
  Simulation of pedestrian flow through a "T" intersection: A multi-floor field cellular automata approach. 205-208
• 
  Chung-I Chou:
  A Knowledge-based Evolution Algorithm approach to political districting problem. 209-212
• 
  B. J. Huang, Ten-Ming Wu:
  Numerical studies for localization-delocalization transition in vibrational spectra. 213-215
• 
  Moon Yong Cha, Jae Woo Lee, Deok-Sun Lee, Doo Hwan Kim:
  Wealth dynamics in world trade. 216-218
• 
  Jaewon Choi, Gyuchang Lim, Soo Yong Kim, Kyungsik Kim:
  Information of group-correlations in Korean financial market. 219-222
• 
  Nen Saito, Yukito Iba:
  Probability of graphs with large spectral gap by multicanonical Monte Carlo. 223-225
• 
  Chien-Fu Chen, An-Chung Cheng, Yi-Duen Wang, Chai-Yu Lin:
  Universal scaling functions of a dissipative Manna model. 226-228
• 
  Manabu Hasegawa:
  Positive role of glassy dynamics in finite-time optimization by threshold algorithms. 229-231
• 
  Chih-Hsien Huang, Jing-Nuo Wu, Szu-Cheng Cheng, Wen-Feng Hsieh:
  The evolution of solitons in coupled resonator optical waveguides and photonic-crystal waveguides. 232-236
• 
  Shin-ichi Tadaki:
  Effects of fast noises on long-range correlations. 237-239
• 
  Naohito Urakami, Junko Imada, Takashi Yamamoto:
  Simulation of chain length recognition observed in formation of inclusion complex. 240-242
• 
  Doo Hwan Kim, Moon Yong Cha, Jae Woo Lee:
  The persistence probability and the price-price correlation functions in the Korean stock market. 243-244
• 
  Mitsuyoshi Tomiya, Hiroyoshi Tsuyuki, Shoichi Sakamoto:
  Quantum fidelity and dynamical scar states on chaotic billiard system. 245-248
• 
  Yao-Chen Hung, Chin-Kun Hu:
  Constructive role of noise in p53 regulatory network. 249-250
• 
  Akimasa Kitajima, Yukito Iba:
  Multicanonical sampling of rare trajectories in chaotic dynamical systems. 251-253

High Energy Physics, Quantum Information, Physics Education, and New Method

• 
  Ke-Jung Chen, Alexander Heger, Ann S. Almgren:
  Multidimensional simulations of pair-instability supernovae. 254-256
• 
  Masayuki Ohzeki, Hidetoshi Nishimori:
  Quantum annealing with Jarzynski equality. 257-259
• 
  Hui-Wen Cheng, Yiming Li, Jung-Yen Yang:
  Investigation of Raman enhancement in hydrothermally roughened SERS-active substrates. 260-262
• 
  Hongsuk Yi:
  Performance evaluation of GAIA supercomputer using NPB multi-zone benchmarks. 263-265
• 
  Chao-Tung Yang, Chih-Lin Huang, Cheng-Fang Lin:
  Hybrid CUDA, OpenMP, and MPI parallel programming on multicore GPU clusters. 266-269
• 
  J. H. Kim, S. Ahn, Kihyeon Cho, M. Bracko, Zbynek Drasal, Thomas Fifield, R. Frühwirth, R. Grzymkowski, T. Hara, Martin Heck, S. Hwang, Y. Iida, Ryosuke Itoh, Go Iwai, H. Jang, Nobu Katayama, Yutaka Kawai, Christian Kiesling, B. K. Kim, T. Kuhr:
  The advanced data searching system with AMGA at the Belle II experiment. 270-273
• 
  Shinichi Miura:
  A variational path integral molecular dynamics study of a solid helium-4. 274-276
• 
  Soonwook Hwang, Hangi Kim, Seyong Kim:
  Large-scale deployment of two-color QCD simulations on the grid using Ganga. 277-279

Volume 182, Number 2, February 2011

Computational physics

• 
  Laura E. Walizer, John F. Peters:
  A bounding box search algorithm for DEM simulation. 281-288
• 
  B. M. Stupovski, Jasna V. Crnjanski, Dejan M. Gvozdic:
  Application of coordinate transformation and finite differences method in numerical modeling of quantum dash band structure. 289-298
• 
  Remi Baron, Philippe Boucaud, Jaume Carbonell, Vincent Drach, Federico Farchioni, Gregorio Herdoiza, Karl Jansen, Chris Michael, Istvan Montvay, Elisabetta Pallante, Olivier Pène, Siebren Reker, Carsten Urbach, Marc Wagner, Urs Wenger:
  Computing K and D meson masses with N_f=2+1+1 twisted mass lattice QCD. 299-316
• 
  Frederic Wrobel, Frédéric Saigné:
  MC-ORACLE: A tool for predicting Soft Error Rate. 317-321
• 
  Raffaele D'Ambrosio, Liviu Gr. Ixaru, Beatrice Paternoster:
  Construction of the ef-based Runge-Kutta methods revisited. 322-329
• 
  Gian Luca Delzanno, John M. Finn:
  The fluid dynamic approach to equidistribution methods for grid adaptation. 330-346
• 
  Gianluca Zuccaro, Giovanni Lapenta, F. Ferrero, G. Maizza:
  Multiphase and multiphysics particle in cell simulation of soot deposition inside a diesel particulate filter single channel. 347-359
• 
  Min Hyung Cho, Haiyu Zheng, Yuehui Lu, YoungPak Lee, Wei Cai:
  Improved rigorous coupled-wave analysis for polar magnetic gratings. 360-365
• 
  Moussa Smadi, Derradji Bahloul:
  A compact split step Padé scheme for higher-order nonlinear Schrödinger equation (HNLS) with power law nonlinearity and fourth order dispersion. 366-371

Computer programs in physics

• 
  David C. Lonie, Eva Zurek:
  XtalOpt: An open-source evolutionary algorithm for crystal structure prediction. 372-387
• 
  Paolo Barletta:
  COOL: A code for dynamic Monte Carlo simulation of molecular dynamics. 388-399
• 
  Mohammad A. Charsooghi, Ehsan A. Akhlaghi, Sharareh Tavaddod, H. R. Khalesifard:
  A MATLAB program to calculate translational and rotational diffusion coefficients of a single particle. 400-408
• 
  Joel Ekstrand:
  Lambda: A Mathematica package for operator product expansions in vertex algebras. 409-418
• 
  Alexander Kramida:
  The program LOPT for least-squares optimization of energy levels. 419-434
• 
  Ronald Kleiss, G. van den Oord:
  CAMORRA: A C++ library for recursive computation of particle scattering amplitudes. 435-447
• 
  Dmitri Sokolovski, Elena V. Akhmatskaya, S. K. Sen:
  Extracting S-matrix poles for resonances from numerical scattering data: Type-II Padé reconstruction. 448-466
• 
  Tarcísio Marciano da Rocha Filho, Annibal Figueiredo:
  [SADE] a Maple package for the symmetry analysis of differential equations. 467-476
• 
  Boaz Keren-Zur:
  HidSecSOFTSUSY: Incorporating effects from hidden sectors in the numerical computation of the MSSM spectrum. 477-484
• 
  Fabian Czerwinski, Lene B. Oddershede:
  TimeSeriesStreaming.vi: LabVIEW program for reliable data streaming of large analog time series. 485-489
• 
  M. Botje:
  QCDNUM: Fast QCD evolution and convolution. 490-532
• 
  José M. Badía, Jose L. Movilla, Juan I. Climente, Maribel Castillo, Mercedes Marqués, Rafael Mayo, Enrique S. Quintana-Ortí, Josep Planelles:
  Large-scale linear system solver using secondary storage: Self-energy in hybrid nanostructures. 533-539

New version announcements

• 
  Ling Ti Kong, Colin Denniston, Martin H. Müser:
  An improved version of the Green's function molecular dynamics method. 540-541
• 
  George Opletal, Timothy C. Petersen, Brendan O'Malley, I. K. Snook, D. G. McCulloch, Irene Yarovsky:
  HRMC_1.1: Hybrid Reverse Monte Carlo method with silicon and carbon potentials. 542

Volume 182, Number 3, March 2011

Computational physics

• 
  Sixten Boeck, Christoph Freysoldt, A. Dick, L. Ismer, Jörg Neugebauer:
  The object-oriented DFT program library S/PHI/nX. 543-554
• 
  Rodrigo Coura Torres, André Rabello dos Anjos, José Manoel de Seixas, Igor Soloviev:
  Automatizing the online filter test management for a general-purpose particle detector. 555-563
• 
  W. W. Lee, T. G. Jenkins, Stéphane Ethier:
  A generalized weight-based particle-in-cell simulation scheme. 564-569
• 
  Nicolas Mellet, Wilfred Anthony Cooper, Pavel Popovich, Laurent Villard, Stephan Brunner:
  Convolution and iterative methods applied to low-frequency waves in 3D warm configurations. 570-589
• 
  David Romero-Laorden, Oscar Martinez-Graullera, Carlos Julian Martín-Arguedas, M. Pérez, Luis G. Ullate:
  Field modelling acceleration on ultrasonic systems using graphic hardware. 590-599
• 
  Miroslav Morhác, Vladislav Matousek:
  Event sorting methods of gamma-ray spectroscopic data. 600-610
• 
  Ulrich Welling, Guido Germano:
  Efficiency of linked cell algorithms. 611-615
• 
  Huajun Zhu, Songhe Song, Yifa Tang:
  Multi-symplectic wavelet collocation method for the nonlinear Schrödinger equation and the Camassa-Holm equation. 616-627
• 
  Néstor Ferrando, M. A. Gosálvez, Joaquín Cerdá, Rafael Gadea Gironés, Kazuo Sato:
  Octree-based, GPU implementation of a continuous cellular automaton for the simulation of complex, evolving surfaces. 628-640
• 
  Viktor K. Decyk, Tajendra V. Singh:
  Adaptable Particle-in-Cell algorithms for graphical processing units. 641-648
• 
  Zhen F. Tian:
  A rational high-order compact ADI method for unsteady convection-diffusion equations. 649-662
• 
  Liang-Wu Cai:
  On the computation of spherical Bessel functions of complex arguments. 663-668
• 
  Jacinto Javier Ibáñez, Vicente Hernández:
  Solving differential matrix Riccati equations by a piecewise-linearized method based on diagonal Padé approximants. 669-678
• 
  T. F. Silva, M. N. Martins:
  Statistical treatment of misalignments in particle accelerators. 679-682
• 
  M. S. Zakynthinaki, R. O. Barakat, Carlos A. Cordente Martínez, J. Sampedro Molinuevo:
  Stochastic optimization for the detection of changes in maternal heart rate kinetics during pregnancy. 683-691
• 
  Vadim Demchik:
  Pseudo-random number generators for Monte Carlo simulations on ATI Graphics Processing Units. 692-705
• 
  Hanquan Wang, Weibiao Xu:
  An efficient numerical method for simulating the dynamics of coupling Bose-Einstein condensates in optical resonators. 706-718
• 
  A. G. Cunha-Netto, Ronald Dickman:
  Critical behavior of hard-core lattice gases: Wang-Landau sampling with adaptive windows. 719-725
• 
  Binh Trieu, Kristel Michielsen, Hans De Raedt:
  Event-based simulation of light propagation in lossless dielectric media. 726-734

Computer programs in physics

• 
  V. Krasilnikov, D. Marocco, Basilio Esposito, Marco Riva, Yu. Kaschuck:
  Fast pulse detection algorithms for digitized waveforms from scintillators. 735-738
• 
  Robert Fleischhaker, Jörg Evers:
  A Maxwell-Schrödinger solver for quantum optical few-level systems. 739-747
• 
  Magdalena Slawiñska, Stanislaw Jadach:
  MCdevelop - a universal framework for Stochastic Simulations. 748-762
• 
  Geneviève Bélanger, Neil D. Christensen, Alexander Pukhov, A. Semenov:
  SLHAplus: A library for implementing extensions of the standard model. 763-774
• 
  Markus Wallerberger, Katharina Igenbergs, Josef Schweinzer, Friedrich Aumayr:
  Fast computation of close-coupling exchange integrals using polynomials in a tree representation. 775-778
• 
  Nadia M. Davidson, Piotr Golonka, Tomasz Przedzinski, Zbigniew Was:
  MC-TESTER v. 1.23: A universal tool for comparisons of Monte Carlo predictions for particle decays in high energy physics. 779-789
• 
  A. V. Smirnov, V. A. Smirnov, M. N. Tentyukov:
  FIESTA 2: Parallelizeable multiloop numerical calculations. 790-803
• 
  Abhishek K. Singh, Evgeni S. Penev, Boris I. Yakobson:
  Armchair or Zigzag? A tool for characterizing graphene edge. 804-807
• 
  Florian Staub:
  Automatic calculation of supersymmetric renormalization group equations and loop corrections. 808-833
• 
  Ioannis G. Tsoulos, Athanassios Stavrakoudis:
  Eucb: A C++ program for molecular dynamics trajectory analysis. 834-841
• 
  Geneviève Bélanger, Fawzi Boudjema, P. Brun, Alexander Pukhov, S. Rosier-Lees, P. Salati, A. Semenov:
  Indirect search for dark matter with micrOMEGAs_2.4. 842-856

Volume 182, Number 4, April 2011

Computational physics

• 
  José Juan Tapia, Roshan M. D'Souza:
  Parallelizing the Cellular Potts Model on graphics processing units. 857-865
• 
  Matteo Antuono, Andrea Colagrossi, Salvatore Marrone, Claudio Lugni:
  Propagation of gravity waves through an SPH scheme with numerical diffusive terms. 866-877
• 
  Jacques Bloch, Simon Heybrock:
  A nested Krylov subspace method to compute the sign function of large complex matrices. 878-889
• 
  Luis Cabellos, Isabel Campos Plasencia, Enol Fernández-del-Castillo, Michal Owsiak, Bartek Palak, Marcin Plóciennik:
  Scientific workflow orchestration interoperating HTC and HPC resources. 890-897
• 
  W. Michael Brown, Peng Wang, Steven J. Plimpton, Arnold N. Tharrington:
  Implementing molecular dynamics on hybrid high performance computers - short range forces. 898-911
• 
  Martin Jucker, Jonathan P. Graves, Wilfred Anthony Cooper, Nicolas Mellet, Thomas Johnson, Stephan Brunner:
  Integrated modeling for ion cyclotron resonant heating in toroidal systems. 912-925
• 
  D. C. Rapaport:
  Enhanced molecular dynamics performance with a programmable graphics processor. 926-934
• 
  Zachary B. Walters:
  Efficient wavefunction propagation by minimizing accumulated action. 935-939
• 
  Ya. A. Ilyushin, V. P. Budak:
  Analysis of the propagation of the femtosecond laser pulse in the scattering medium. 940-945
• 
  Joachim Müller, Sven Simon, Uwe Motschmann, Josef Schüle, Karl-Heinz Glassmeier, Gavin J. Pringle:
  A.I.K.E.F.: Adaptive hybrid model for space plasma simulations. 946-966
• 
  Graziela Grise, Michael Meyer-Hermann:
  Surface reconstruction using Delaunay triangulation for applications in life sciences. 967-977
• 
  Francesca Campolongo, Andrea Saltelli, Jessica Cariboni:
  From screening to quantitative sensitivity analysis. A unified approach. 978-988
• 
  Alison Barros, Euler de Vilhena Garcia, Rafael Morgado Silva:
  Simulation of stochastic processes using graphics hardware. 989-993
• 
  Shamsul Qamar, Muhammad Yousaf, Sidrah Mudasser:
  The space-time CE/SE method for solving ultra-relativistic Euler equations. 994-1004
• 
  Ralf Kleiber, Roman Hatzky, Axel Könies, K. Kauffmann, P. Helander:
  An improved control-variate scheme for particle-in-cell simulations with collisions. 1005-1012
• 
  San Kiong Lai, Yu-Ting Lin, P. J. Hsu, Siew Ann Cheong:
  Dynamical study of metallic clusters using the statistical method of time series clustering. 1013-1026
• 
  Jae Hwan Lee, Seung-Yeon Kim, Julian Lee:
  Parallel algorithm for calculation of the exact partition function of a lattice polymer. 1027-1033

Computer programs in physics

• 
  M. Aliev, H. Lacker, U. Langenfeld, S. Moch, Peter Uwer, M. Wiedermann:
  HATHOR - HAdronic Top and Heavy quarks crOss section calculatoR. 1034-1046
• 
  Alejandro Lorca, Eduardo Huedo, Ignacio Martín Llorente:
  The Grid[Way] Job Template Manager, a tool for parameter sweeping. 1047-1060
• 
  Matthew O. Zacate, William E. Evenson:
  Stochastic hyperfine interactions modeling library. 1061-1077
• 
  Emanuel Gull, Philipp Werner, Sebastian Fuchs, Brigitte Surer, Thomas Pruschke, Matthias Troyer:
  Continuous-time quantum Monte Carlo impurity solvers. 1078-1082
• 
  Niall Moran, Graham Kells, Jirí Vala:
  Diagonalisation of quantum observables on regular lattices and general graphs. 1083-1092
• 
  Matt J. Harvey, Gianni De Fabritiis:
  Swan: A tool for porting CUDA programs to OpenCL. 1093-1099
• 
  Alexis Diaz-Torres:
  PLATYPUS: A code for reaction dynamics of weakly-bound nuclei at near-barrier energies within a classical dynamical model. 1100-1104

Volume 182, Number 5, May 2011

Computational physics

• 
  Sergio M. Davis, Anatoly B. Belonoshko, Börje Johansson:
  SearchFill: A stochastic optimization code for detecting atomic vacancies in crystalline and non-crystalline systems. 1105-1110
• 
  Yali Liu, Changjun Hu, Chongchong Zhao:
  Efficient parallel implementation of Ewald summation in molecular dynamics simulations on multi-core platforms. 1111-1119
• 
  Peter H. Colberg, Felix Höfling:
  Highly accelerated simulations of glassy dynamics using GPUs: Caveats on limited floating-point precision. 1120-1129
• 
  J. B. Santos-Filho, João Antônio Plascak:
  Monte Carlo simulations of the site-diluted three-dimensional XY model. 1130-1133
• 
  Ram K. Pandey, Om P. Singh, Vipul K. Baranwal:
  An analytic algorithm for the space-time fractional advection-dispersion equation. 1134-1144
• 
  Darío M. Mitnik, Flavio D. Colavecchia, Gustavo Gasaneo, Juan M. Randazzo:
  Computational methods for Generalized Sturmians basis. 1145-1155
• 
  Andrey E. Vladimirov, S. W. Digel, G. Jóhannesson, P. F. Michelson, Igor V. Moskalenko, P. L. Nolan, Elena Orlando, Troy A. Porter, A. W. Strong:
  GALPROP WebRun: An internet-based service for calculating galactic cosmic ray propagation and associated photon emissions. 1156-1161
• 
  Shoji Hamada:
  GPU-accelerated indirect boundary element method for voxel model analyses with fast multipole method. 1162-1168
• 
  Mario S. Reis:
  Models for zero-dimensional molecular magnets. 1169-1177
• 
  Shin-ichi Satake, Gaku Sorimachi, Nobuyuki Masuda, Tomoyoshi Ito:
  Special-purpose computer for Particle Image Velocimetry. 1178-1182

Computer programs in physics

• 
  Torbjörn Björkman:
  CIF2Cell: Generating geometries for electronic structure programs. 1183-1186
• 
  C. David Pruett, William H. Ingham, Ralph D. Herman:
  Parallel implementation of an adaptive and parameter-free N-body integrator. 1187-1198

Erratum

• 
  Liqiang Wei:
  Direct and exact compute and table of entire 3j, 6j, and 9j symbols: Erratum to CPC 120 (1999) 222-230. 1199

Volume 182, Number 6, June 2011

Computational physics

• 
  Ki-Hwan Kim, KyoungHo Kim, Q.-Han Park:
  Performance analysis and optimization of three-dimensional FDTD on GPU using roofline model. 1201-1207
• 
  Mark G. Beckett, Paul D. Coddington, Bálint Joó, Chris M. Maynard, Dirk Pleiter, Osamu Tatebe, Tomoteru Yoshie:
  Building the International Lattice Data Grid. 1208-1214
• 
  Zi-Cai Li, S.-Y. Chen, Cheng-Sheng Chien, Huei-Shuang Chen:
  A spectral collocation method for a rotating Bose-Einstein condensation in optical lattices. 1215-1234
• 
  Brecht Verstichel, Helen van Aggelen, Dimitri Van Neck, Patrick Bultinck, Stijn De Baerdemacker:
  A primal-dual semidefinite programming algorithm tailored to the variational determination of the two-body density matrix. 1235-1244
• 
  Taisuke Ozaki, Masayuki Toyoda:
  Accurate finite element method for atomic calculations based on density functional theory and Hartree-Fock method. 1245-1252
• 
  Roberto Bonciani, Giuseppe Degrassi, Alessandro Vicini:
  On the generalized harmonic polylogarithms of one complex variable. 1253-1264
• 
  Massimo Bernaschi, Giorgio Parisi, Leonardo Parisi:
  Benchmarking GPU and CPU codes for Heisenberg spin glass over-relaxation. 1265-1271
• 
  Rio Yokota, Jaydeep P. Bardhan, Matthew G. Knepley, Lorena A. Barba, Tsuyoshi Hamada:
  Biomolecular electrostatics using a fast multipole BEM on up to 512 gpus and a billion unknowns. 1272-1283
• 
  Mehdi Dehghan, Rooholah Jazlanian:
  A high-order non-oscillatory central scheme with non-staggered grids for hyperbolic conservation laws. 1284-1294
• 
  Guoxin Cheng, Lie Liu:
  Monte Carlo modeling of secondary electron emission and its incorporation in particle simulations of electron-surface interaction. 1295-1303
• 
  Alain Carapelle, Jean-Marc Defise, David Strivay, Henri-Pierre Garnir:
  Handheld modern computer brings new features to portable X-ray fluorescence coating thickness measurement device. 1304-1306
• 
  Gergely Endrodi:
  Multidimensional spline integration of scattered data. 1307-1314

Computer programs in physics

• 
  Charlotte Froese Fischer:
  A B-spline Hartree-Fock program. 1315-1326
• 
  Christian B. Mendl:
  The FermiFab toolbox for fermionic many-particle quantum systems. 1327-1337
• 
  Henryk Czyz, Sergiy Ivashyn:
  EKHARA: A Monte Carlo generator for e⁺e^-→e⁺e^-π⁰ and e⁺e^-→e⁺e^-π⁺π^- processes. 1338-1349
• 
  Preetma Soin, Andrew P. Horsfield, D. Nguyen-Manh:
  Efficient self-consistency for magnetic tight binding. 1350-1360
• 
  Zhiwei Lin, Shaoen Jiang, Shunchao Wu, Longyu Kuang:
  A local rezoning and remapping method for unstructured mesh. 1361-1376
• 
  Saulius Mickevicius, Eimantas Brazauskas, Darius Germanas, Ramutis Kazys Kalinauskas:
  The four-particle harmonic-oscillator brackets: Compact expressions and updated Fortran program. 1377-1381

New version announcements

• 
  Thomas Müller:
  GeodesicViewer - A tool for exploring geodesics in the theory of relativity. 1382-1383
• 
  Ilka Antcheva, Maarten Ballintijn, Bertrand Bellenot, Marek Biskup, Rene Brun, Nenad Buncic, Philippe Canal, Diego Casadei, Olivier Couet, Valery Fine, Leandro Franco, Gerardo Ganis, Andrei Gheata, David González Maline, Masaharu Goto, Jan Iwaszkiewicz, Anna Kreshuk, Diego Marcos Segura, Richard Maunder, Lorenzo Moneta, Axel Naumann:
  ROOT - A C++ framework for petabyte data storage, statistical analysis and visualization. 1384-1385
• 
  Thomas Müller:
  Motion4D-library extended. 1386-1388
• 
  Andrzej Daniluk:
  Cooperative and competitive concurrency in scientific computing. A full open-source upgrade of the program for dynamical calculations of RHEED intensity oscillations. 1389-1390

Volume 182, Number 7, July 2011

Computational physics

• 
  M. Blank, Andreas Krassnigg:
  Matrix algorithms for solving (in)homogeneous bound state equations. 1391-1401
• 
  Raoudha Chaabane, Faouzi Askri, Sassi Ben Nasrallah:
  Analysis of two-dimensional transient conduction-radiation problems in an anisotropically scattering participating enclosure using the lattice Boltzmann method and the control volume finite element method. 1402-1413
• 
  J. M. Alcaraz-Pelegrina, P. Rodríguez-García:
  Simulations of pulse propagation in optical fibers using graphics processor units. 1414-1420
• 
  Stefan Maintz, Bernhard Eck, Richard Dronskowski:
  Speeding up plane-wave electronic-structure calculations using graphics-processing units. 1421-1427
• 
  Barbara Kirchner, Christian Spickermann, Sebastian B. C. Lehmann, Eva Perlt, Johanna Langner, Michael von Domaros, Patricia Reuther, Frank Uhlig, Miriam Kohagen, Marc Brüssel:
  What can clusters tell us about the bulk?: Peacemaker: Extended quantum cluster equilibrium calculations. 1428-1446
• 
  Jun Li, Yi Sun, Zhiwei Cui, Fanlin Zeng:
  Least square method for the calculation of elastic constants. 1447-1451
• 
  Albert H. Mao, Rohit V. Pappu:
  Exact recording of Metropolis-Hastings-class Monte Carlo simulations using one bit per sample. 1452-1454
• 
  Apostol Gramada, Philip E. Bourne:
  Coarse-graining the electrostatic potential via distributed multipole expansions. 1455-1462
• 
  V. N. Pavlov, Marina V. Chukalina, A. A. Veligzhanin, Y. V. Zubavichus:
  Optimum filtering and stochastic optimization in EXAFS data analysis. 1463-1466
• 
  Henrik Schulz, Géza Ódor, Gergely Ódor, Máté Ferenc Nagy:
  Simulation of 1+1 dimensional surface growth and lattices gases using GPUs. 1467-1476
• 
  Tomasz Korzec, Ingmar Vierhaus, Ulli Wolff:
  Performance of a worm algorithm in ϕ⁴ theory at finite quartic coupling. 1477-1480
• 
  Xiong You, Yonghui Zhang, Jinxi Zhao:
  Trigonometrically-fitted Scheifele two-step methods for perturbed oscillators. 1481-1490
• 
  D. Emeliyanov:
  A new algorithm for fitting tracks with energy losses due to Bremsstrahlung. 1491-1501

Computer programs in physics

• 
  Manhui Wang, Andrew J. May, Peter J. Knowles:
  Improved version of parallel programming interface for distributed data with multiple helper servers. 1502-1506
• 
  I. Shkarofsky, Magdi Shoucri:
  A numerical code for the calculation of relativistic electron cyclotron damping with an arbitrary distribution function at an arbitrary harmonic. 1507-1517
• 
  Lev Yu. Barash, Lev N. Shchur:
  RNGSSELIB: Program library for random number generation, SSE2 realization. 1518-1527
• 
  N. R. Badnell:
  A Breit-Pauli distorted wave implementation for autostructure. 1528-1535
• 
  Biljana Milenkovic, Nenad Stevanovic, Dragoslav Nikezic, Milos R. Ivanovic:
  Computer program Neutron_CR-39 for simulation of neutrons from an Am-Be source and calculation of proton track profiles. 1536-1542
• 
  Christoph Horst, Jürgen Reuter:
  CleGo: A package for automated computation of Clebsch-Gordan coefficients in tensor product representations for Lie algebras A-G. 1543-1565
• 
  Jonathon Carter, Gudrun Heinrich:
  SecDec: A general program for sector decomposition. 1566-1581

New version announcements

• 
  Alexandre Arbey, Farvah Mahmoudi:
  SuperIso Relic v3.0: A program for calculating relic density and flavour physics observables: Extension to NMSSM. 1582-1583

Volume 182, Number 8, August 2011

Computational physics

• 
  Jun Liu:
  A general method for testing validity of one-particle spectral functions. 1585-1588
• 
  Gang Wang, Huiyu Zhu, Quanhua Sun, Deliang Zhang, Kaixin Liu:
  An improved CE/SE scheme and its application to dilute gas-particle flows. 1589-1601
• 
  F. L. Braga, Mauricio S. Ribeiro:
  Diffusion Limited Aggregation: Algorithm optimization revisited. 1602-1605
• 
  Zhen-Ran Jiang, Wei-ming Yu, Ran Tao:
  Predicting important classes of chemokine family based on kernel method. 1606-1609
• 
  D. A. Baver, James R. Myra, M. V. Umansky:
  Linear eigenvalue code for edge plasma in full tokamak X-point geometry. 1610-1620
• 
  M. Wen, Afrooz Barnoush, K. Yokogawa:
  Calculation of all cubic single-crystal elastic constants from single atomistic simulation: Hydrogen effect and elastic constants of nickel. 1621-1625
• 
  Georgios Panopoulos, Zacharias A. Anastassi, Theodore E. Simos:
  A symmetric eight-step predictor-corrector method for the numerical solution of the radial Schrödinger equation and related IVPs with oscillating solutions. 1626-1637
• 
  Jonathan Gross, Wolfhard Janke, Michael Bachmann:
  Massively parallelized replica-exchange simulations of polymers on GPUs. 1638-1644
• 
  Xiuling Hu, Luming Zhang:
  A compact finite difference scheme for the fourth-order fractional diffusion-wave system. 1645-1650
• 
  Kyle A. Wendt, Joaquín E. Drut, Timo A. Lähde:
  Toward large-scale Hybrid Monte Carlo simulations of the Hubbard model on graphics processing units. 1651-1656
• 
  Dmitrii Nabok, Peter Puschnig, Claudia Ambrosch-Draxl:
  noloco: An efficient implementation of van der Waals density functionals based on a Monte-Carlo integration technique. 1657-1662
• 
  Edward Farhi, Jeffrey Goldstone, David Gosset, Harvey B. Meyer:
  A Quantum Monte Carlo method at fixed energy. 1663-1673

Computer programs in physics

• 
  Simon Badger, Benedikt Biedermann, Peter Uwer:
  NGluon: A package to calculate one-loop multi-gluon amplitudes. 1674-1692
• 
  Frank Tabakin, Bruno Juliá-Díaz:
  QCWAVE - A Mathematica quantum computer simulation update. 1693-1707
• 
  Alberto Otero-de-la-Roza, Víctor Luaña:
  Gibbs2: A new version of the quasi-harmonic model code. I. Robust treatment of the static data. 1708-1720
• 
  Lai Wang, Frank X. Lee:
  MathQCDSR: A Mathematica package for QCD sum rules calculations. 1721-1731
• 
  Özgür Çobanoglu, Erkcan Özcan, Saleh Sultansoy, Gökhan Ünel:
  OPUCEM: A library with error checking mechanism for computing oblique parameters. 1732-1743
• 
  Osman Baris Malcioglu, Ralph Gebauer, Dario Rocca, Stefano Baroni:
  turboTDDFT - A code for the simulation of molecular spectra using the Liouville-Lanczos approach to time-dependent density-functional perturbation theory. 1744-1754

Volume 182, Number 9, September 2011

Editorial

• 
  Alex Hansen, Asle Sudbø:
  Preface. 1755

High Energy Physics/Accelerator Physics

• 
  Kihyeon Cho, Junghyun Kim, Soo-hyeon Nam:
  Collider physics based on e-Science paradigm of experiment-computing-theory. 1756-1759
• 
  Volker Blobel, Claus Kleinwort, Frank Meier:
  Fast alignment of a complex tracking detector using advanced track models. 1760-1763

Astrophysics/Plasma Physics/Fluid Dynamics

• 
  Adam Burrows, Jason Nordhaus, Ann S. Almgren, John B. Bell:
  The potential role of spatial dimension in the neutrino-driving mechanism of core-collapse supernova explosions. 1764-1766
• 
  Uri Shumlak, Robert Lilly, Noah Reddell, Éder Marinho Sousa, Bhuvana Srinivasan:
  Advanced physics calculations using a multi-fluid plasma model. 1767-1770
• 
  Xijun Yu, Di Wu, Yun Xu:
  Three dimensional discontinuous Galerkin methods for Euler equations on adaptive conforming meshes. 1771-1775
• 
  Jirí Jenista, Hidemasa Takana, Hideya Nishiyama, Milada Bartlová, Vladimír Aubrecht, Petr Krenek, Viktor Sember, Alan Masláni:
  A comparative numerical study of hybrid-stabilized argon-water electric arc. 1776-1783
• 
  Petr Jelínek, Gerhard Hensler:
  The collisions of high-velocity clouds with the galactic halo. 1784-1789

Ab-Initio Calculation in Quantum Chemistry/Atomic Physics

• 
  Evgeny Z. Liverts, Nir Barnea:
  S-states of helium-like ions. 1790-1795
• 
  Giovanna Zilibotti, Mauro Ferrario, Carlo Maria Bertoni, Maria Clelia Righi:
  Ab initio calculation of adhesion and potential corrugation of diamond (001) interfaces. 1796-1799
• 
  Kristian Berland, Øyvind Borck, Per Hyldgaard:
  Van der Waals density functional calculations of binding in molecular crystals. 1800-1804
• 
  Elisa Londero, Elsebeth Schröder:
  Vanadium pentoxide (V₂O₅): A van der Waals density functional study. 1805-1809
• 
  Asif Mushtaq, Amna Noreen, Kåre Olaussen, Ingjald Øverbø:
  Very-high-precision solutions of a class of Schrödinger type equations. 1810-1813
• 
  Jochen Rohrer, Per Hyldgaard:
  Computational scheme for ab-initio predictions of chemical compositions interfaces realized by deposition growth. 1814-1818

Complex Systems/Chaos/Statistical Physics

• 
  Anton Yu. Menshutin, Lev N. Shchur:
  Morphological diagram of diffusion driven aggregate growth in plane: Competition of anisotropy and adhesion. 1819-1823
• 
  Gabriel Villalobos, Ferenc Kun, Dorian L. Linero, José D. Muñoz:
  Size distribution and waiting times for the avalanches of the Cell Network Model of Fracture. 1824-1827
• 
  Oliver Melchert, Alexander K. Hartmann:
  A dedicated algorithm for calculating ground states for the triangular random bond Ising model. 1828-1832
• 
  Martin Weigel:
  Simulating spin models on GPU. 1833-1836
• 
  Andreas Tröster:
  Wilson's momentum shell renormalization group from Fourier Monte Carlo simulations. 1837-1841
• 
  Sebastián González, Anthony R. Thornton, Stefan Luding:
  An event-driven algorithm for fractal cluster formation. 1842-1845
• 
  Cristiano De Michele:
  Optimizing event-driven simulations. 1846-1850
• 
  Jahir Abbas Ahmed, Sitangshu Bikas Santra:
  Rotational sandpile models: A finite size scaling study. 1851-1855
• 
  Heitor C. M. Fernandes, Martin Weigel:
  Non-reversible Monte Carlo simulations of spin models. 1856-1859
• 
  William F. Oquendo, J. D. Muñoz, A. Lizcano:
  Influence of rotations on the critical state of soil mechanics. 1860-1865
• 
  Gerardo Iñiguez, Rafael A. Barrio, János Kertész, Kimmo Kaski:
  Modelling opinion formation driven communities in social networks. 1866-1869
• 
  Osamu Sano:
  Flow-induced waterway in a heterogeneous granular material. 1870-1874
• 
  Leonardo Costa Ribeiro, Ricardo Machado Ruiz, Eduardo Motta Albuquerque, Américo Tristão Bernardes:
  The diffusion of technological knowledge through interlaced networks. 1875-1878
• 
  Jacob D. Stevenson, Martin Weigel:
  Percolation and Schramm-Loewner evolution in the 2D random-field Ising model. 1879-1882
• 
  Frank Beyer, Martin Weigel:
  Spin stiffness of vector spin glasses. 1883-1887
• 
  Hiromi Otsuka:
  Phase transitions in square-lattice dimer model with anisotropic interactions. 1888-1891
• 
  D. Wilms, Anke Winkler, Peter Virnau, Kurt Binder:
  Monte Carlo simulations of the 2d-Ising model in the geometry of a long stripe. 1892-1895
• 
  Ying Wai Li, Thomas Wüst, David P. Landau:
  Monte Carlo simulations of the HP model (the "Ising model" of protein folding). 1896-1899
• 
  Pawel Sobczak, Lukasz Kucharski, Grzegorz Kamieniarz:
  Genetic algorithm approach to calculation of geometric configurations of 2D clusters of uniformly charged classical particles. 1900-1903
• 
  Ingve Simonsen, Jacob B. Kryvi, Alexei A. Maradudin, Tamara A. Leskova:
  Light scattering from anisotropic, randomly rough, perfectly conducting surfaces. 1904-1908
• 
  Malihe Ghodrat, Afshin Montakhab:
  Molecular dynamics simulation of a relativistic gas: Thermostatistical properties. 1909-1913
• 
  Olga Rancova, Egidijus Anisimovas, Tadas Varanavicius:
  Numerical modeling of structural transitions in few-particle confined 2D systems. 1914-1918
• 
  Vincent Ballenegger, Jan Josep Cerdà, Christian Holm:
  Removal of spurious self-interactions in particle-mesh methods. 1919-1923
• 
  Przemyslaw Gawronski, Krzysztof Kulakowski:
  Crowd dynamics - being stuck. 1924-1927

Biological Physics/Soft Materials

• 
  Thomas Vogel, Michael Bachmann:
  Adsorption of polymers at nanowires. 1928-1931
• 
  M. Florens, B. Sapoval, M. Filoche:
  The optimal branching asymmetry of a bidirectional distribution tree. 1932-1936
• 
  Christoph Junghans, Wolfhard Janke, Michael Bachmann:
  Hierarchies in nucleation transitions. 1937-1940
• 
  Jens Smiatek, Friederike Schmid:
  Mesoscopic simulations of electroosmotic flow and electrophoresis in nanochannels. 1941-1944
• 
  Daniel Reith, Peter Virnau:
  Monte Carlo simulations of a single polystyrene chain in spherical confinement. 1945-1948
• 
  Hendrik Meyer, Nava Debora Schulmann, J. E. Zabel, Joachim Paul Jakob Wittmer:
  The structure factor of dense two-dimensional polymer solutions. 1949-1953
• 
  Jonàs Sala, Elvira Guàrdia, Marco Masia:
  Improving the force matching algorithm: Application to a simple point charge flexible model of water. 1954-1957
• 
  Shigenori Matsumoto, Fumiko Takagi, Takashi Shimada, Nobuyasu Ito:
  Molecular dynamics simulation of ribosome jam. 1958-1960
• 
  Monika Möddel, Wolfhard Janke, Michael Bachmann:
  Adsorption of finite polymers in different thermodynamic ensembles. 1961-1965
• 
  Viktoria Blavatska, Wolfhard Janke:
  Θ-polymers in crowded media under stretching force. 1966-1969
• 
  L. Angelani, Roberto Di Leonardo:
  Numerical modeling of bacteria propelled micromotors. 1970-1973

Computational Materials Science

• 
  Igor V. Morozov, Andrey M. Kazennov, R. G. Bystryi, Genri E. Norman, Vasily V. Pisarev, Vladimir V. Stegailov:
  Molecular dynamics simulations of the relaxation processes in the condensed matter on GPUs. 1974-1978
• 
  K. N. Nigussa, J. A. Støvneng:
  Theoretical investigation of the interaction of oxygen with pure and K-doped NiTi shape memory surface alloys. 1979-1983
• 
  Srutarshi Pradhan:
  Can we predict the failure point of a loaded composite material? 1984-1988
• 
  Xizhong An, Runyu Yang, Kejun Dong, Aibing Yu:
  DEM study of crystallization of monosized spheres under mechanical vibrations. 1989-1994

Quantum Phase Transitions/Condensed Matter Theory/Nano Science

• 
  Matthias Degroote, Dimitri Van Neck, Carlo Barbieri:
  Faddeev Random Phase Approximation for molecules. 1995-1998
• 
  M. Ögren, K. V. Kheruntsyan, Joel F. Corney:
  Stochastic simulations of fermionic dynamics with phase-space representations. 1999-2003
• 
  Titus Adrian Beu:
  Simulation of the flow of aqueous solutions through carbon nanotubes. 2004-2008
• 
  Joan Adler, Jeremie Zaffran, Amihai Silverman, Anastassia Sorkin, Or Cohen, Rafi Kalish:
  Simulation and visualization of nanodiamond and nanographite. 2009-2012
• 
  Artur Barasinski, Andrzej Drzewinski, Grzegorz Kamieniarz:
  Quantum effects and Haldane gap in magnetic chains with alternating anisotropy axes. 2013-2016
• 
  M. S. Dhaka, G. Sharma, M. C. Mishra, K. B. Joshi, R. K. Kothari, B. K. Sharma:
  Electron momentum density distribution in Cd₃P₂. 2017-2020
• 
  M. J. Wolak, V. G. Rousseau, Ghassan Georges Batrouni:
  Pairing in population imbalanced Fermion systems. 2021-2024
• 
  Brecht Verstichel, Helen van Aggelen, Dimitri Van Neck, Paul W. Ayers, Patrick Bultinck:
  Variational density matrix optimization using semidefinite programming. 2025-2028
• 
  Hemant Dixit, Rolando Saniz, Dirk Lamoen, Bart Partoens:
  Accurate pseudopotential description of the GW bandstructure of ZnO. 2029-2031
• 
  Keiji Hayashi, Tomoki Shiraishi, Kazuho Toyoda, Fumiya Tanaka, Taiga Mori, Takumi Hata:
  Temperature-controlled molecular dynamics study on velocity-dependent threshold behavior of dynamic nano-friction. 2032-2035
• 
  Michael Knap, Enrico Arrigoni, Wolfgang von der Linden:
  Polaritonic properties of the Jaynes-Cummings lattice model in two dimensions. 2036-2040

Supercomputing/Software/Visualization/Numerical Methods

• 
  Norbert Attig, Paul Gibbon, Thomas Lippert:
  Trends in supercomputing: The European path to exascale. 2041-2046
• 
  Xavier Saez, Alejandro Soba, Edilberto Sanchez, Ralf Kleiber, Francisco Castejón, José M. Cela:
  Improvements of the particle-in-cell code EUTERPE for petascaling machines. 2047-2051
• 
  Igor V. Morozov, Ilya A. Valuev:
  Automatic distributed workflow generation with GridMD library. 2052-2058
• 
  María Eugenia Castro, Javier Díaz, Camelia Muñoz-Caro, Alfonso Niño:
  A uniform object-oriented solution to the eigenvalue problem for real symmetric and Hermitian matrices. 2059-2064

Challenges in Computational Physics Education/Computational Physics in the Third World

• 
  Nithaya Chetty:
  New modalities for scientific engagement in Africa - the case for computational physics. 2065-2070
• 
  Rubin H. Landau, Manuel J. Paez, Cristian Bordeianu, Sally Haerer:
  Making physics education more relevant and accessible via computation and eTextBooks. 2071-2075

Volume 182, Number 10, October 2011

Computational physics

• 
  Alexander Pletzer, H. R. Strauss:
  An efficient method for solving elliptic boundary element problems with application to the tokamak vacuum problem. 2077-2083
• 
  Felipe A. Cruz, Simon K. Layton, Lorena A. Barba:
  How to obtain efficient GPU kernels: An illustration using FMM & FGT algorithms. 2084-2098
• 
  Vladimir Roudnev, Michael Cavagnero:
  Automatic grid construction for few-body quantum-mechanical calculations. 2099-2106
• 
  Georg P. Engel, Stefan Schaefer:
  Testing trivializing maps in the Hybrid Monte Carlo algorithm. 2107-2114
• 
  Hsiao-Ping Hsu, Wolfgang Paul:
  A fast Monte Carlo algorithm for studying bottle-brush polymers. 2115-2121
• 
  Tomás S. Grigera:
  glsim: A general library for numerical simulation. 2122-2131
• 
  Hon-Cheng Wong, Un-Hong Wong, Xueshang Feng, Zesheng Tang:
  Efficient magnetohydrodynamic simulations on graphics processing units with CUDA. 2132-2160
• 
  Philipp Mertmann, Denis Eremin, Thomas Mussenbrock, Ralf Peter Brinkmann, Peter Awakowicz:
  Fine-sorting one-dimensional particle-in-cell algorithm with Monte-Carlo collisions on a graphics processing unit. 2161-2167
• 
  Ralf Gamillscheg, Gundolf Haase, Wolfgang von der Linden:
  A numerical projection technique for large-scale eigenvalue problems. 2168-2173
• 
  Matthew Shelley, Nicolas Poilvert, Arash A. Mostofi, Nicola Marzari:
  Automated quantum conductance calculations using maximally-localised Wannier functions. 2174-2183
• 
  Dirk Reith, Karl N. Kirschner:
  A modern workflow for force-field development - Bridging quantum mechanics and atomistic computational models. 2184-2191
• 
  H. S. Wiklund, Stefan B. Lindström, T. Uesaka:
  Boundary condition considerations in lattice Boltzmann formulations of wetting binary fluids. 2192-2200

Computer programs in physics

• 
  Ling Ti Kong:
  Phonon dispersion measured directly from molecular dynamics simulations. 2201-2207
• 
  Kangkang Wang, Arthur R. Smith:
  Efficient kinematical simulation of reflection high-energy electron diffraction streak patterns for crystal surfaces. 2208-2212
• 
  C. González-Ballestero, Luis Miguel Robledo, George F. Bertsch:
  Numeric and symbolic evaluation of the pfaffian of general skew-symmetric matrices. 2213-2218
• 
  W. Frisch, H. Eberl, H. Hluchá:
  HFOLD - A program package for calculating two-body MSSM Higgs decays at full one-loop level. 2219-2226
• 
  Daniel J. Sindhikara:
  Modular reweighting software for statistical mechanical analysis of biased equilibrium data. 2227-2231
• 
  Alberto Otero-de-la-Roza, David Abbasi-Pérez, Víctor Luaña:
  Gibbs2: A new version of the quasiharmonic model code. II. Models for solid-state thermodynamics, features and implementation. 2232-2248
• 
  Pablo M. Dupuy, Peter Austin, Gary W. Delaney, M. P. Schwarz:
  Pore scale definition and computation from tomography data. 2249-2258
• 
  Rok Zitko:
  SNEG - Mathematica package for symbolic calculations with second-quantization-operator expressions. 2259-2264
• 
  Reuben D. Budiardja, Christian Y. Cardall:
  Parallel FFT-based Poisson solver for isolated three-dimensional systems. 2265-2275
• 
  Gavin Cullen, Jean-Philippe Guillet, Gudrun Heinrich, Tobias Kleinschmidt, Eric Pilon, Thomas Reiter, Mark Rodgers:
  Golem95C: A library for one-loop integrals with complex masses. 2276-2284
• 
  Tania Loke, Jingbo Wang:
  An efficient quantum circuit analyser on qubits and qudits. 2285-2294
• 
  Scott D. Berry, Paul Bourke, Jingbo B. Wang:
  qwViz: Visualisation of quantum walks on graphs. 2295-2302

New version announcements

• 
  A. V. Nesterenko, C. Simolo:
  QCDMAPT_F: Fortran version of QCDMAPT package. 2303-2304
• 
  David C. Lonie, Eva Zurek:
  XtalOpt version r7: An open-source evolutionary algorithm for crystal structure prediction. 2305-2306

Volume 182, Number 11, November 2011

Computational physics

• 
  Trung Dac Nguyen, Carolyn L. Phillips, Joshua A. Anderson, Sharon C. Glotzer:
  Rigid body constraints realized in massively-parallel molecular dynamics on graphics processing units. 2307-2313
• 
  Francisco Alhama, Fulgencio Marín-García, José Andrés Moreno:
  An efficient and reliable model to simulate microscopic mechanical friction in the Frenkel-Kontorova-Tomlinson model. 2314-2325
• 
  Hui-Chin Tang, Hwapeng Chang:
  An exhaustive search for good 64-bit linear congruential random number generators with restricted multiplier. 2326-2330
• 
  Yuchuan Chu, Yong Cao, Xiaoming He, Min Luo:
  Asymptotic boundary conditions with immersed finite elements for interface magnetostatic/electrostatic field problems with open boundary. 2331-2338

Computer programs in physics

• 
  Robert J. Hinde:
  QSATS: MPI-driven quantum simulations of atomic solids at zero temperature. 2339-2349
• 
  Stephan Deublein, Bernhard Eckl, Jürgen Stoll, Sergey V. Lishchuk, Gabriela Guevara-Carrion, Colin W. Glass, Thorsten Merker, Martin Bernreuther, Hans Hasse, Jadran Vrabec:
  ms2: A molecular simulation tool for thermodynamic properties. 2350-2367
• 
  Gavin Cullen, Maciej Koch-Janusz, T. Reiter:
  spinney: A Form library for helicity spinors. 2368-2387
• 
  Ryan Gavin, Ye Li, Frank Petriello, Seth Quackenbush:
  FEWZ 2.0: A code for hadronic Z production at next-to-next-to-leading order. 2388-2403
• 
  Claude Duhr, Benjamin Fuks:
  A superspace module for the FeynRules package. 2404-2426
• 
  Andreas van Hameren:
  OneLOop: For the evaluation of one-loop scalar functions. 2427-2438

New version announcements

• 
  Sam J. Cipolla:
  ISICS2011, an updated version of ISICS: A program for calculation K-, L-, and M-shell cross sections from PWBA and ECPSSR theories using a personal computer. 2439-2440
• 
  José M. Badía, Jose L. Movilla, Juan I. Climente, Maribel Castillo, Mercedes Marqués, Rafael Mayo, Enrique S. Quintana-Ortí, Josep Planelles:
  A parallel solver for huge dense linear systems. 2441-2442

Erratum

• 
  Jonàs Sala, Elvira Guàrdia, Marco Masia:
  Erratum to "Improving the force matching algorithm: Application to a simple point charge flexible model of water" [Comput. Phys. Comm. 182(9) (2011) 1954-1957]. 2443

Volume 182, Number 12, December 2011

Computational physics

• 
  Aldo Frezzotti, G. P. Ghiroldi, Livio Gibelli:
  Solving the Boltzmann equation on GPUs. 2445-2453
• 
  Heiko Bauke, Christoph H. Keitel:
  Accelerating the Fourier split operator method via graphics processing units. 2454-2463
• 
  Akbar Mohebbi, Zohreh Asgari:
  Efficient numerical algorithms for the solution of "good" Boussinesq equation in water wave propagation. 2464-2470
• 
  Jorge Eduardo Macías-Díaz:
  Sufficient conditions for the preservation of the boundedness in a numerical method for a physical model with transport memory and nonlinear damping. 2471-2478
• 
  Adrian Alexandrescu, José R. Salgueiro:
  Efficient numerical method for linear stability analysis of solitary waves. 2479-2485
• 
  Jiyong Li, Bin Wang, Xiong You, Xinyuan Wu:
  Two-step extended RKN methods for oscillatory systems. 2486-2507
• 
  I. Silin, Richard D. Sydora:
  Hybrid Fourier-Vlasov simulation in non-inertial reference frames. 2508-2518
• 
  Mehdi Dehghan, Ameneh Taleei:
  A Chebyshev pseudospectral multidomain method for the soliton solution of coupled nonlinear Schrödinger equations. 2519-2529
• 
  Jürgen Rubow, Ulli Wolff:
  A factorization algorithm to compute Pfaffians. 2530-2532
• 
  Andrzej Odrzywolek:
  Gaussian integration with rescaling of abscissas and weights. 2533-2539
• 
  Mehdi Dehghan, Rezvan Salehi:
  The solitary wave solution of the two-dimensional regularized long-wave equation in fluids and plasmas. 2540-2549
• 
  Andreas Kleefeld, Tzu-Chu Lin:
  The nonlinear Landweber method applied to an inverse scattering problem for sound-soft obstacles in 3D. 2550-2560

Computer programs in physics

• 
  Michal Meres, Ivan Melo, Boris Tomásik, Vladimír Balek, Vladimír Cerný:
  Generating heavy particles with energy and momentum conservation. 2561-2566
• 
  Didier Sébilleau, Calogero Natoli, George M. Gavaza, Haifeng Zhao, Fabiana Da Pieve, Keisuke Hatada:
  MsSpec-1.0: A multiple scattering package for electron spectroscopies in material science. 2567-2579
• 
  David D. Jenkins, Gregory D. Peterson:
  AESS: Accelerated Exact Stochastic Simulation. 2580-2586
• 
  Graeme J. Ackland, K. D'Mellow, S. L. Daraszewicz, D. J. Hepburn, Martin Uhrin, K. Stratford:
  The MOLDY short-range molecular dynamics package. 2587-2604
• 
  Philip Bechtle, O. Brein, Sven Heinemeyer, Georg Weiglein, K. E. Williams:
  HiggsBounds 2.0.0: Confronting neutral and charged Higgs sector predictions with exclusion bounds from LEP and the Tevatron. 2605-2631
• 
  Zi Li, Xu Zhang, Gang Lu:
  A Fortran program for calculating electron or hole mobility in disordered semiconductors from first-principles. 2632-2637
• 
  Ozlem Ozgun, Gökhan Apaydin, Mustafa Kuzuoglu, Levent Sevgi:
  PETOOL: MATLAB-based one-way and two-way split-step parabolic equation tool for radiowave propagation over variable terrain. 2638-2654
• 
  Jiahang Zhong, Run-Sheng Huang, Shih-Chang Lee:
  A program for the Bayesian Neural Network in the ROOT framework. 2655-2660
• 
  Eduardo X. Miqueles, Alvaro R. De Pierro:
  C-library raft: Reconstruction algorithms for tomography. Applications to X-ray fluorescence tomography. 2661-2673