Computer Physics Communications, Volume 180

Volume 180, Number 1, January 2009

• Hezhu Shao, Zhongcheng Wang:
  Arbitrarily precise numerical solutions of the one-dimensional Schrödinger equation. 1-7
  
• Benjamin C. Allanach, C. Balázs, G. Bélanger, M. Bernhardt, F. Boudjema, D. Choudhury, Klaus Desch, Ulrich Ellwanger, Paolo Gambino, R. Godbole, T. Goto, J. Guasch, M. Guchait, Thomas Hahn, Sven Heinemeyer, Cyril Hugonie, T. Hurth, S. Kraml, S. Kreiss, J. Lykken:
  SUSY Les Houches Accord 2. 8-25
  
• Nigel Cundy, Stefan Krieg, Guido Arnold, Andreas Frommer, Thomas Lippert, Klaus Schilling:
  Numerical methods for the QCD overlap operator IV: Hybrid Monte Carlo. 26-54
  
• Hong Wei Yang:
  A FDTD analysis on magnetized plasma of Epstein distribution and reflection calculation. 55-60
  

• Cong-Feng Qiao, Jian Wang, Jian Xiong Wang, Yangheng Zheng:
  EtabFDC: An eta_b event generator in hadroproduction at LHC. 61-68
  
• Wojciech Broniowski, Maciej Rybczynski, Piotr Bozek:
  GLISSANDO: GLauber Initial-State Simulation AND mOre... 69-83
  
• S. Wheaton, J. Cleymans, M. Hauer:
  THERMUS - A thermal model package for ROOT. 84-106
  
• James Gray, Yang-Hui He, Anton Ilderton, André Lukas:
  STRINGVACUA. A Mathematica package for studying vacuum configurations in string phenomenology. 107-119
  
• G. P. Salam, J. Rojo:
  A Higher Order Perturbative Parton Evolution Toolkit (HOPPET). 120-156
  
• A. Otero-de-la-Roza, M. A. Blanco, A. Martín Pendás, Víctor Luaña:
  Critic: a new program for the topological analysis of solid-state electron densities. 157-166
  

Volume 180, Number 2, February 2009

• Z. Kalogiratou, Th. Monovasilis, Tom E. Simos:
  Computation of the eigenvalues of the Schrödinger equation by exponentially-fitted Runge-Kutta-Nyström methods. 167-176
  
• J. G. Jiang, Y. N. Huang:
  Simulation of distribution of random walks on a lattice. 177-179
  
• Nigel Cundy:
  Low-lying Wilson Dirac operator eigenvector mixing in dynamical overlap hybrid Monte Carlo. 180-191
  
• Guang-hui Cheng, Ting-Zhu Huang, Shu-Qian Shen:
  Block triangular preconditioners for the discretized time-harmonic Maxwell equations in mixed form. 192-196
  
• Jean-Paul Brichta, Aden N. Seaman, Joseph H. Sanderson:
  Ultrafast imaging of polyatomic molecules with simplex algorithm. 197-200
  
• Nigel Cundy, Stefan Krieg, Thomas Lippert, Andreas Schäfer:
  Topological tunnelling with dynamical overlap fermions. 201-208
  
• Yong Duan, P. F. Tang, Ting-Zhu Huang, S. J. Lai:
  Coupling projection domain decomposition method and Kansa's method in electrostatic problems. 209-214
  
• Attilio Cucchieri, Axel Maas, Tereza Mendes:
  Linear covariant gauges on the lattice. 215-225
  
• D. Portes Jr., H. Rodrigues, B. Baseia, S. B. Duarte:
  Computational procedure to determine quantum state evolution in Fock space. 226-230
  
• Byoungseon Jeon, Niels Grønbech-Jensen:
  Efficient parallel algorithm for statistical ion track simulations in crystalline materials. 231-237
  
• Armen H. Poghosyan, Aram A. Shahinyan:
  A new parameter for validation molecular dynamics simulation (MD) data. 238-240
  
• Veerle Ledoux, Marnix Van Daele, Guido Vanden Berghe:
  Efficient computation of high index Sturm-Liouville eigenvalues for problems in physics. 241-250
  
• Panagiotis Vlachos, Ioannis Karafyllidis:
  Simulation of quantum key expansion using quantum cellular automata. 251-255
  
• Khatuna Kakhiani, Kakha Tsereteli, Paata Tsereteli:
  A program to generate a basis set adaptive radial quadrature grid for density functional theory. 256-268
  
• A. Nappi:
  A pitfall in the use of extended likelihood for fitting fractions of pure samples in a mixed sample. 269-275
  

• M. Souaille, H. Loirat, D. Borgis, M. P. Gaigeot:
  MDVRY: a polarizable classical molecular dynamics package for biomolecules. 276-301
  
• D. Engel, M. Klews, G. Wunner:
  A fast parallel code for calculating energies and oscillator strengths of many-electron atoms at neutron star magnetic field strengths in adiabatic approximation. 302-311
  
• J. S. Lee, M. Carena, J. Ellis, A. Pilaftsis, C. E. M. Wagner:
  CPsuperH2.0: An improved computational tool for Higgs phenomenology in the MSSM with explicit CP violation. 312-331
  
• J. D. Talman:
  NumSBT: A subroutine for calculating spherical Bessel transforms numerically. 332-338
  

Volume 180, Number 3, March 2009

• V. A. Kudryavtsev:
  Muon simulation codes MUSIC and MUSUN for underground physics. 339-346
  
• Christoph Friedrich, Arno Schindlmayr, Stefan Blügel:
  Efficient calculation of the Coulomb matrix and its expansion around k=0 within the FLAPW method. 347-359
  
• Pedro Gonnet, Jens H. Walther, Petros Koumoutsakos:
  theta-SHAKE: An extension to SHAKE for the explicit treatment of angular constraints. 360-364
  
• Takayuki Umeda, Kentaro Togano, Tatsuki Ogino:
  Two-dimensional full-electromagnetic Vlasov code with conservative scheme and its application to magnetic reconnection. 365-374
  
• Chia-Chien Huang:
  Semiconductor nanodevice simulation by multidomain spectral method with Chebyshev, prolate spheroidal and Laguerre basis functions. 375-383
  
• Simone Orlandini, Isabella Baccarelli, Francesco A. Gianturco:
  Variational calculations of structures and energetics in very floppy trimers: A new computational implementation. 384-391
  
• V. A. Dzuba:
  An universal algorithm of calculating terms of atomic many-body perturbation theory. 392-400
  

• Alessandro Ballestrero, Aissa Belhouari, Giuseppe Bevilacqua, Vladimir Kashkan, Ezio Maina:
  PHANTOM: A Monte Carlo event generator for six parton final states at high energy colliders. 401-417
  
• J. Brandon Keith, Jacob R. Fennick, Chad E. Junkermeier, Daniel R. Nelson, James P. Lewis:
  A web-deployed interface for performing ab initio molecular dynamics, optimization, and electronic structure in Fireball. 418-426
  
• Michele Caffo, Henryk Czyz, Michal Gunia, Ettore Remiddi:
  BOKASUN: A fast and precise numerical program to calculate the Master Integrals of the two-loop sunrise diagrams. 427-430
  
• A. V. Semenov:
  LanHEP - a package for the automatic generation of Feynman rules in field theory. Version 3.0. 431-454
  
• F. Reinhard, Oliver F. Lange, Jochen S. Hub, Jürgen Haas, Helmut Grubmüller:
  g_permute: Permutation-reduced phase space density compaction. 455-458
  
• Dimitris Skouteris, Osvaldo Gervasi, Antonio Laganà:
  A program for performing exact quantum dynamics calculations using cylindrical polar coordinates: A nanotube application. 459-465
  
• Zhe Yuan, Shiwu Gao:
  Linear response approach to collective electronic excitations of solids and surfaces. 466-473
  

• Bruno Juliá-Díaz, Joseph M. Burdis, Frank Tabakin:
  QDENSITY - A Mathematica quantum computer simulation. 474
  

Volume 180, Number 4, April 2009

• J. A. Plascak, A. T. Bernardes:
  CCP2008 - Modeling a better world.
  
• Thomas Wüst, D. P. Landau, C. Gervais, Y. Xu:
  Monte Carlo simulations of systems with complex energy landscapes. 475-479
  
• Mário J. de Oliveira:
  Glassy states in the stochastic Potts model. 480-484
  
• Shan-Ho Tsai, D. P. Landau:
  Phase diagram of a two-dimensional large-Q Potts model in an external field. 485-487
  
• Ernesto S. Loscar, Ezequiel V. Albano:
  Hysteretic effects in the first-order irreversible phase transition of the ZGB model. 488-492
  
• B. Berche, P. Butera, W. Janke, L. Shchur:
  Universal ratios of critical amplitudes in the Potts model universality class. 493-496
  
• Marco G. Mazza, Kevin Stokely, Elena G. Strekalova, H. Eugene Stanley, Giancarlo Franzese:
  Cluster Monte Carlo and numerical mean field analysis for the water liquid-liquid phase transition. 497-502
  
• L. Nduwayo, R. Lindebaum, N. Chetty:
  Suppressed bond-site percolation. 503-508
  
• T. E. Booth, J. E. Gubernatis:
  Sewing algorithm. 509-511
  
• T. Tallinen, J. A. Åström, J. Timonen:
  Discrete element simulations of crumpling of thin sheets. 512-516
  
• Janos M. Kumpula, Jukka-Pekka Onnela, Jari Saramäki, János Kertész, Kimmo Kaski:
  Model of community emergence in weighted social networks. 517-522
  
• Mary Luz Mouronte, Rosa M. Benito, J. P. Cárdenas, Antonio Santiago, Vicente Feliú Batlle, P. van Wijngaarden, Luis Gregorio Moyano:
  Complexity in Spanish optical fiber and SDH transport networks. 523-526
  
• Gabriel Baglietto, Ezequiel V. Albano:
  Computer simulations of the collective displacement of self-propelled agents. 527-531
  
• Enrique Burgos, Horacio Ceva, Laura Hernández, R. P. J. Perazzo:
  Understanding and characterizing nestedness in mutualistic bipartite networks. 532-535
  
• Tânia Tomé, Áttila L. Rodrigues, Everaldo Arashiro, Mário J. de Oliveira:
  The stochastic nature of predator-prey cycles. 536-539
  
• Marcos Rigol, Rajiv R. P. Singh:
  Thermodynamic properties of quantum lattice models from numerical linked cluster expansions. 540-544
  
• Przemyslaw Klosiewicz, Jan Broeckhove, Wim Vanroose:
  Using pseudo-arclength continuation to trace the resonances of the Schrödinger equation. 545-548
  
• Myoung Won Cho, Sul-Ah Ahn:
  Efficient and exact computation of Hubbard and t-J models using quantum diagonalization method. 549-554
  
• Norbert Attig:
  Computational physics with PetaFlops computers. 555-558
  
• Jamie Shiers:
  Grid today, clouds on the horizon. 559-563
  
• G. Krein, J. M. Machado, A. O. Pereira:
  Dynamics of the deconfinement transition of quarks and gluons in a finite volume. 564-573
  
• R. L. S. Farias, Rudnei O. Ramos, L. A. da Silva:
  Numerical solutions for non-Markovian stochastic equations of motion. 574-579
  
• Joan Adler, Polina Pine:
  Visualization techniques for modelling carbon allotropes. 580-582
  
• A. G. Cunha-Netto, Ronald Dickman, A. A. Caparica:
  Two-dimensional lattice polymers: Adaptive windows simulations. 583-586
  
• D. T. Seaton, Thomas Wüst, D. P. Landau:
  A Wang-Landau study of the phase transitions in a flexible homopolymer. 587-589
  
• Cláudio José DaSilva, A. G. Cunha-Netto, Ronald Dickman, A. A. Caparica:
  Constructing ground state configurations of lattice polymers. 590-593
  
• A. G. Bailey, C. P. Lowe, A. P. Sutton:
  REVLD: A coarse-grained model for polymers. 594-599
  
• M. Müller, C. Pastorino, J. Servantie:
  Hydrodynamic boundary condition of polymer melts at simple and complex surfaces. 600-604
  
• Burkhard Dünweg, Ulf D. Schiller, Anthony J. C. Ladd:
  Progress in the understanding of the fluctuating lattice Boltzmann equation. 605-608
  
• Eric J. R. Parteli, Murilo P. Almeida, Orencio Durán, José S. Andrade Jr., Hans J. Herrmann:
  Sand transport on Mars. 609-611
  
• A. P. F. Atman, P. Claudin, G. Combe:
  Departure from elasticity in granular layers: Investigation of a crossover overload force. 612-615
  
• W. F. Oquendo, José D. Muñoz, A. Lizcano:
  Oedometric test, Bauer's law and the micro-macro connection for a dry sand. 616-620
  
• Reinaldo R. Rosa, Fernando M. Ramos, Cesar A. Caretta, Haroldo F. de Campos Velho:
  Extreme event dynamics in the formation of galaxy-sized dark matter structures. 621-624
  
• Naoki Yoshida:
  Supercomputer simulations of structure formation in the Universe. 625-627
  
• Sang Ki Nam, John P. Verboncoeur:
  Global model for high power microwave breakdown at high pressure in air. 628-635
  
• Seung Min Lee, Yong Jun Hong, Young Sik Seo, Felipe Iza, Gyoo Cheon Kim, Jae Koo Lee:
  Simulations of biomedical atmospheric-pressure discharges. 636-641
  
• T. Kroetz, F. A. Marcus, M. Roberto, Iberê L. Caldas, Ricardo L. Viana, E. C. da Silva:
  Transport control in fusion plasmas by changing electric and magnetic field spatial profiles. 642-650
  
• Min Sup Hur, Jonathan S. Wurtele:
  Two-dimensional simulations of the amplification and focusing of intense laser pulses in the kinetic regime of Raman backward amplification in plasmas. 651-655
  
• Y. C. Chuang, J. Y. Hsu:
  Particle-in-cell study of microwave confined plasma. 656-658
  
• J.-Y. Lin, Y.-H. Tang, M.-H. Tsai:
  Electronic structures of the Si(001) thin film under (110)- and (010)-direction uniaxial tensile strains. 659-663
  
• Fortunato Silva de Menezes, Davi Geiger, Ricardo Martins Abreu e Silva, George Distler, Arefin Hu:
  Forward-backward study of the stereo vision problem. 664-668
  

Volume 180, Number 5, May 2009

• Tao Wei, Shengjing Mu, Aiichiro Nakano, Katherine Shing:
  A hybrid multi-loop genetic-algorithm/simplex/spatial-grid method for locating the optimum orientation of an adsorbed protein on a solid surface. 669-674
  
• S. Jadach, W. Placzek, M. Skrzypek, P. Stephens, Z. Was:
  Constrained MC for QCD evolution with rapidity ordering and minimum kT. 675-698
  
• Shyamal Bhar, Soumen Kumar Roy:
  Computer simulation of two continuous spin models using Wang-Landau-Transition-Matrix Monte Carlo algorithm. 699-707
  
• A. S. V. Ravi Kanth, K. Aruna:
  Differential transform method for solving the linear and nonlinear Klein-Gordon equation. 708-711
  
• Jacinto Javier Ibáñez, Vicente Hernández, Enrique Arias, Pedro A. Ruiz:
  Solving Initial Value Problems for Ordinary Differential Equations by two approaches: BDF and piecewise-linearized methods. 712-723
  

• Sridhar Sahu, Alok Shukla:
  Fortran 90 implementation of the Hartree-Fock approach within the CNDO/2 and INDO models. 724-734
  
• A. V. Smirnov, M. N. Tentyukov:
  Feynman Integral Evaluation by a Sector decomposiTion Approach (FIESTA). 735-746
  
• G. Bélanger, F. Boudjema, A. Pukhov, A. Semenov:
  Dark matter direct detection rate in a generic model with micrOMEGAs_2.2. 747-767
  
• Juan-Luis Domenech-Garret, Miguel-Angel Sanchis-Lozano:
  QQ-onia package: a numerical solution to the Schrödinger radial equation for heavy quarkonium. 768-778
  
• I. P. Lokhtin, L. V. Malinina, S. V. Petrushanko, A. M. Snigirev, I. Arsene, K. Tywoniuk:
  Heavy ion event generator HYDJET++ (HYDrodynamics plus JETs). 779-799
  
• A. Otero-de-la-Roza, Víctor Luaña:
  Runwien: a text-based interface for the WIEN package. 800-812
  

Volume 180, Number 6, June 2009

• Michele Della Morte, Leonardo Giusti:
  Exploiting symmetries for exponential error reduction in path integral Monte Carlo. 813-818
  
• Michele Della Morte, Leonardo Giusti:
  Symmetries and exponential error reduction in Yang-Mills theories on the lattice. 819-826
  
• Sumie Yamamoto, Keisuke Fujii, Akiya Miyamoto:
  A handy tool for history keeping of Geant4 tracks - J4HistoryKeeper. 827-834
  
• L. Welser-Sherrill, J. H. Cooley, D. C. Wilson:
  Interactive tools designed to study mix in inertial confinement fusion implosions. 835-841
  
• Zhongcheng Wang, Hezhu Shao:
  A new kind of discretization scheme for solving a two-dimensional time-independent Schrödinger equation. 842-849
  
• C. Timbó, L. A. R. da Rosa, M. Gonçalves, S. B. Duarte:
  Computational cancer cells identification by fractal dimension analysis. 850-853
  
• Rong Zeng, Yanzhi Zhang:
  Efficiently computing vortex lattices in rapid rotating Bose-Einstein condensates. 854-860
  
• Diego Molteni, Andrea Colagrossi:
  A simple procedure to improve the pressure evaluation in hydrodynamic context using the SPH. 861-872
  
• Mehdi Dehghan, Narges Rastegar:
  On the global behavior of a high-order rational difference equation. 873-878
  
• Charlotte Froese Fischer, Oleg Zatsarinny:
  A B-spline Galerkin method for the Dirac equation. 879-886
  
• M. V. Umansky, X. Q. Xu, B. Dudson, L. L. LoDestro, J. R. Myra:
  Status and verification of edge plasma turbulence code BOUT. 887-903
  
• Kui Fu Chen, Jing Tao Jiang, Stephen Crowsen:
  Against the long-range spectral leakage of the cosine window family. 904-911
  
• Adrian Alexandrescu, Alfonso Bueno-Orovio, José R. Salgueiro, Víctor M. Pérez-García:
  Mapped Chebyshev pseudospectral method for the study of multiple scale phenomena. 912-919
  
• J. Timoshenko, A. Kuzmin:
  Wavelet data analysis of EXAFS spectra. 920-925
  
• S.-L. Chang, C.-S. Chien:
  Computing multiple peak solutions for Bose-Einstein condensates in optical lattices. 926-947
  

• Frank Tabakin, Bruno Juliá-Díaz:
  QCMPI: A parallel environment for quantum computing. 948-964
  
• R. Alkofer, M. Q. Huber, K. Schwenzer:
  Algorithmic derivation of Dyson-Schwinger equations. 965-976
  
• R. Ramis, J. Meyer-ter-Vehn, J. Ramírez:
  MULTI2D - a computer code for two-dimensional radiation hydrodynamics. 977-994
  
• Vladimir Horvat:
  ERCS08: A FORTRAN program equipped with a Windows graphics user interface that calculates ECPSSR cross sections for the removal of atomic electrons. 995-1003
  
• Ling Ti Kong, Guido Bartels, Carlos Campañá, Colin Denniston, Martin H. Müser:
  Implementation of Green's function molecular dynamics: An extension to LAMMPS. 1004-1010
  

• Ochbadrakh Chuluunbaatar, A. A. Gusev, Vladimir P. Gerdt, V. A. Rostovtsev, Sergey I. Vinitsky, A. G. Abrashkevich, Michail S. Kaschiev, V. V. Serov:
  Erratum to: Program AEAA_v1_0, "POTHMF: A program for computing potential curves and matrix elements of the coupled adiabatic radial equations for a hydrogen-like atom in a homogeneous magnetic field" [Computer Physics Communications 178 (2008) 301]. 1011
  
• Ochbadrakh Chuluunbaatar, A. A. Gusev, Sergey I. Vinitsky, A. G. Abrashkevich:
  Erratum to: Program ADZH_v2_0, "KANTBP 2.0: New version of a program for computing energy levels, reaction matrix and radial wave functions in the coupled-channel hyperspherical adiabatic approach" [Computer Physics Communications 179 (2008) 685]. 1012
  

Volume 180, Number 7, July 2009

• W. Younes:
  Gaussian matrix elements in a cylindrical harmonic oscillator basis. 1013-1040
  
• N. D. M. Hine, P. D. Haynes, Arash A. Mostofi, C.-K. Skylaris, M. C. Payne:
  Linear-scaling density-functional theory with tens of thousands of atoms: Expanding the scope and scale of calculations with ONETEP. 1041-1053
  
• Jianying Zhang, Guangwu Yan:
  A lattice Boltzmann model for the Korteweg-de Vries equation with two conservation laws. 1054-1062
  
• Jian Wang:
  Multisymplectic numerical method for the Zakharov system. 1063-1071
  
• T. E. Simos:
  P-stability, Trigonometric-fitting and the numerical solution of the radial Schrödinger equation. 1072-1085
  
• Franck Assous, Felix Tsipis:
  Numerical paraxial approximation for highly relativistic beams. 1086-1097
  
• G. A. Nemnes, K. H. Hoffmann:
  Spin-box algorithm for low temperature dynamics of short range disordered Ising spin systems. 1098-1103
  
• Zhen Wang:
  Discrete tanh method for nonlinear difference-differential equations. 1104-1108
  
• Elisa Stevanato, Roberto Stroili:
  A case study for the handling of data in a skimming control system. 1109-1115
  
• Om P. Singh, Rajesh K. Pandey, Vineet K. Singh:
  An analytic algorithm of Lane-Emden type equations arising in astrophysics using modified Homotopy analysis method. 1116-1124
  
• Miguel A. García-March, Miguel Arevalillo-Herráez, Francisco R. Villatoro, Fernando Giménez, Pedro Fernández de Córdoba:
  A generalized finite difference method using Coatmèlec lattices. 1125-1133
  
• José M. Soler, Eduardo Anglada:
  Optimal Fourier filtering of a function that is strictly confined within a sphere. 1134-1136
  
• Gui-qiong Xu:
  A note on the Painlevé test for nonlinear variable-coefficient PDEs. 1137-1144
  
• Kensuke Yokoi:
  A variational approach to multi-phase motion of gas, liquid and solid based on the level set method. 1145-1149
  

• M. A. Caprio, D. J. Rowe, T. A. Welsh:
  Construction of SO(5) SUPERSET OF SO(3) spherical harmonics and Clebsch-Gordan coefficients. 1150-1163
  
• S. Vanaverbeke, Rony Keppens, Stefaan Poedts, H. Boffin:
  GRADSPH: A parallel smoothed particle hydrodynamics code for self-gravitating astrophysical fluid dynamics. 1164-1182
  
• María Eugenia Castro, Alfonso Niño, Camelia Muñoz-Caro:
  Gmat. A software tool for the computation of the rovibrational G matrix. 1183-1187
  
• Kei Moritsugu, Jeremy C. Smith:
  REACH: A program for coarse-grained biomolecular simulation. 1188-1195
  
• Min Gao, Masaaki Ito:
  A Maple package for verifying ultradiscrete soliton solutions. 1196-1205
  
• O. Shekhovtsova, G. Venanzoni, G. Pancheri:
  FASTERD: A Monte Carlo event generator for the study of final state radiation in the process e⁺e^-->pipigamma at DAPhiNE. 1206-1218
  

• Andrzej Daniluk:
  Multithreaded transactions in scientific computing. The Growth06_v2 program. 1219-1220
  

Volume 180, Number 8, August 2009

• Tirath Ramdas, Gregory K. Egan, David Abramson, Kim Baldridge:
  ERI sorting for emerging processor architectures. 1221-1229
  
• M. M. Becker, D. Loffhagen, W. Schmidt:
  A stabilized finite element method for modeling of gas discharges. 1230-1241
  
• Otmar Ertl, Siegfried Selberherr:
  A fast level set framework for large three-dimensional topography simulations. 1242-1250
  
• Yongzhi Chen, Yuefan Deng:
  A detailed analysis of communication load balance on BlueGene supercomputer. 1251-1258
  
• Jee-Gong Chang, Yu-Bin Fang, Shin-Pon Ju:
  Using a generalized molecular dynamics force model for random microstructure generation of different aspect-ratios and orientation for use in the optical design of an LED edge-lit backlight. 1259-1270
  
• Rok Zitko:
  Adaptive logarithmic discretization for numerical renormalization group methods. 1271-1276
  
• X. Ferrieres, G. Klysz, P. Mazet, J. P. Balayssac:
  Evaluation of the concrete electromagnetics properties by using radar measurements in a context of building sustainability. 1277-1281
  
• Nobuyuki Aiba, Shinji Tokuda, M. Furukawa, P. B. Snyder, M. S. Chu:
  MINERVA: Ideal MHD stability code for toroidally rotating tokamak plasmas. 1282-1304
  
• Hong-Yu Wang, Wei Jiang, You-Nian Wang:
  Parallelization and optimization of electrostatic Particle-in-Cell/Monte-Carlo Coupled codes as applied to RF discharges. 1305-1314
  
• Dhiranjan Roy:
  Global approximation for some functions. 1315-1337
  
• Stephan Dürr:
  Logarithmic link smearing for full QCD. 1338-1357
  

• Ochbadrakh Chuluunbaatar, A. A. Gusev, Sergey I. Vinitsky, A. G. Abrashkevich:
  ODPEVP: A program for computing eigenvalues and eigenfunctions and their first derivatives with respect to the parameter of the parametric self-adjoined Sturm-Liouville problem. 1358-1375
  
• Rajan K. Chakrabarty, Mark A. Garro, Shammah Chancellor, Christopher Herald, Hans Moosmüller:
  FracMAP: A user-interactive package for performing simulation and orientation-specific morphology analysis of fractal-like solid nano-agglomerates. 1376-1381
  
• Chuanfu Luo, Jens-Uwe Sommer:
  Coding coarse grained polymer model for LAMMPS and its application to polymer crystallization. 1382-1391
  
• Andrea Marini, Conor Hogan, Myrta Grüning, Daniele Varsano:
  yambo: An ab initio tool for excited state calculations. 1392-1403
  
• Constantinos Voglis, Panagiotis E. Hadjidoukas, Isaac E. Lagaris, Dimitris G. Papageorgiou:
  A numerical differentiation library exploiting parallel architectures. 1404-1415
  
• Layla Martin-Samos, Giovanni Bussi:
  SaX: An open source package for electronic-structure and optical-properties calculations in the GW approximation. 1416-1425
  

• Thomas Hahn, Sven Heinemeyer, Wolfgang Hollik, Heidi Rzehak, Georg Weiglein:
  FeynHiggs: A program for the calculation of MSSM Higgs-boson observables - Version 2.6.5. 1426-1427
  

Volume 180, Number 9, September 2009

• Songxin Liang, David J. Jeffrey:
  New travelling wave solutions to modified CH and DP equations. 1429-1433
  
• Carlos E. Fiore, Mário J. de Oliveira:
  Extending the use of canonical and microcanonical Monte Carlo algorithms to spin models. 1434-1441
  
• Luca Argenti, Renato Colle:
  On the B-splines effective completeness. 1442-1447
  
• Tatiana V. Levitina, Erkki J. Brändas:
  Filter diagonalization: Filtering and postprocessing with prolates. 1448-1457
  
• Mehdi Dehghan, Davoud Mirzaei:
  Meshless local boundary integral equation (LBIE) method for the unsteady magnetohydrodynamic (MHD) flow in rectangular and circular pipes. 1458-1466
  
• B. D. Dudson, M. V. Umansky, X. Q. Xu, P. B. Snyder, H. R. Wilson:
  BOUT++: A framework for parallel plasma fluid simulations. 1467-1480
  
• Huanmin Yao:
  Solution of the Duffing equation involving both integral and non-integral forcing terms. 1481-1488
  
• Kunio Ishida, Keiichiro Nasu:
  Numerical simulation on the dynamics of photoinduced cooperative phenomena in molecular crystals. 1489-1494
  
• Massimo Bernaschi, Simone Melchionna, Sauro Succi, Maria Fyta, Efthimios Kaxiras, Joy K. Sircar:
  MUPHY: A parallel MUlti PHYsics/scale code for high performance bio-fluidic simulations. 1495-1502
  
• James E. Magee, Helen Dutton, Flor R. Siperstein:
  CaSPA - an algorithm for calculation of the size of percolating aggregates. 1503-1510
  
• Hua Yang, Yuchao Nie, Hongbin Zhang, Zengru Di, Ying Fan:
  Insight to the express transport network. 1511-1515
  
• Alper Korkmaz, Idris Dag:
  Solitary wave simulations of Complex Modified Korteweg-de Vries Equation using differential quadrature method. 1516-1523
  
• W. A. Cooper, Steven P. Hirshman, P. Merkel, J. P. Graves, J. Kisslinger, H. F. G. Wobig, Y. Narushima, S. Okamura, K. Y. Watanabe:
  Three-dimensional anisotropic pressure free boundary equilibria. 1524-1533
  
• Nobuaki Ohno, Akira Kageyama:
  Visualization of spherical data by Yin-Yang grid. 1534-1538
  
• M. M. Rashidi, E. Erfani:
  New analytical method for solving Burgers' and nonlinear heat transfer equations and comparison with HAM. 1539-1544
  
• Xinyuan Wu, Xiong You, Jiyong Li:
  Note on derivation of order conditions for ARKN methods for perturbed oscillators. 1545-1549
  
• Manabu Yagi, Kanako Seki, Yosuke Matsumoto:
  Development of a magnetohydrodynamic simulation code satisfying the solenoidal magnetic field condition. 1550-1557
  
• Michael Weyrauch, Daniel Scholz:
  Computing the Baker-Campbell-Hausdorff series and the Zassenhaus product. 1558-1565
  
• Qingjie Zhao, Baojun Zhang, Huosheng Hu:
  Novel two-step filtering scheme for a logging-while-drilling system. 1566-1571
  

• G. Alvarez:
  The density matrix renormalization group for strongly correlated electron systems: A generic implementation. 1572-1578
  
• F. Mahmoudi:
  SuperIso v2.3: A program for calculating flavor physics observables in supersymmetry. 1579-1613
  
• Neil D. Christensen, Claude Duhr:
  FeynRules - Feynman rules made easy. 1614-1641
  
• Boris Tomásik:
  DRAGON: Monte Carlo generator of particle production from a fragmented fireball in ultrarelativistic nuclear collisions. 1642-1653
  
• Rafael López, Jaime Fernández Rico, Guillermo Ramírez, Ignacio Ema, David Zorrilla:
  DAMQT: A package for the analysis of electron density in molecules. 1654-1660
  
• K. Arnold, M. Bähr, G. Bozzi, F. Campanario, C. Englert, T. Figy, N. Greiner, C. Hackstein, V. Hankele, B. Jäger, G. Klämke, M. Kubocz, C. Oleari, S. Plätzer, S. Prestel, M. Worek, D. Zeppenfeld:
  Vbfnlo: A parton level Monte Carlo for processes with electroweak bosons. 1661-1670
  
• Karol Kolodziej:
  carlomat: A program for automatic computation of lowest order cross sections. 1671-1680
  
• Thomas Hahn:
  SUSY Les Houches Accord 2 I/O made easy. 1681-1693
  
• Elsayed K. Elmaghraby:
  PHASE-OTI: A pre-equilibrium model code for nuclear reactions calculations. 1694-1699
  
• S. A. Chin, S. Janecek, E. Krotscheck:
  An arbitrary order diffusion algorithm for solving Schrödinger equations. 1700-1708
  

• D. Binosi, J. Collins, C. Kaufhold, L. Theußl:
  JaxoDraw: A graphical user interface for drawing Feynman diagrams. Version 2.0 release notes. 1709-1715
  
• Sam J. Cipolla:
  ISICS2008: An expanded version of ISICS for calculating K-, L-, and M-shell cross sections from PWBA and ECPSSR theory. 1716-1717
  
• F. Mahmoudi:
  SuperIso v3.0, flavor physics observables calculations: extension to NMSSM. 1718-1719
  

Volume 180, Number 10, October 2009

• Kartika Chandra Sahoo, Yiming Li, Edward Yi Chang:
  Numerical calculation of the reflectance of sub-wavelength structures on silicon nitride for solar cell application. 1721-1729
  
• Nicolas Crouseilles, Thomas Respaud, Eric Sonnendrücker:
  A forward semi-Lagrangian method for the numerical solution of the Vlasov equation. 1730-1745
  
• Özgür Ergül, Levent Gürel:
  Discretization error due to the identity operator in surface integral equations. 1746-1752
  
• W. F. Perger, J. Criswell, Bartolomeo Civalleri, Roberto Dovesi:
  Ab-initio calculation of elastic constants of crystalline systems with the CRYSTAL code. 1753-1759
  
• G. B. Jacobs, Jan S. Hesthaven:
  Implicit-explicit time integration of a high-order particle-in-cell method with hyperbolic divergence cleaning. 1760-1767
  
• D. G. Pretty, B. D. Blackwell:
  A data mining algorithm for automated characterisation of fluctuations in multichannel timeseries. 1768-1776
  
• Hongli Yang, Xinyuan Wu, Xiong You, Yonglei Fang:
  Extended RKN-type methods for numerical integration of perturbed oscillators. 1777-1794
  
• Xiaojun Tong, Zhu Wang, Haining Yu:
  A research using hybrid RBF/Elman neural networks for intrusion detection system secure model. 1795-1801
  
• J. Martín-Vaquero, B. Janssen:
  Second-order stabilized explicit Runge-Kutta methods for stiff problems. 1802-1810
  
• J. J. Monaghan, J. B. Kajtar:
  SPH particle boundary forces for arbitrary boundaries. 1811-1820
  
• Jiaxiang Cai:
  Multisymplectic numerical method for the regularized long-wave equation. 1821-1831
  
• Enza De Lauro, Salvatore De Martino, Mariarosaria Falanga, L. Gr. Ixaru:
  Limit cycles in nonlinear excitation of clusters of classical oscillators. 1832-1838
  
• D. F. Papadopoulos, Zacharias A. Anastassi, T. E. Simos:
  A phase-fitted Runge-Kutta-Nyström method for the numerical solution of initial value problems with oscillating solutions. 1839-1846
  
• M. Williams:
  Numerical object oriented quantum field theory calculations. 1847-1852
  
• Ting-Zhu Huang, Li-Tao Zhang, Tongxiang Gu, Xian-yu Zuo:
  New block triangular preconditioner for linear systems arising from the discretized time-harmonic Maxwell equations. 1853-1859
  
• D. Laveder, D. Borgogno, T. Passot, P. L. Sulem:
  On a semi-implicit scheme for spectral simulations of dispersive magnetohydrodynamics. 1860-1869
  
• Noriyuki Tanabe, Yasuyuki Ichihashi, Hirotaka Nakayama, Nobuyuki Masuda, Tomoyoshi Ito:
  Speed-up of hologram generation using ClearSpeed Accelerator board. 1870-1873
  
• Alexandre M. Tartakovsky, Kim F. Ferris, Paul Meakin:
  Lagrangian particle model for multiphase flows. 1874-1881
  

• B. J. Jackin, P. K. Palanisamy:
  A completely open source based computing system for computer generation of Fourier holograms. 1882-1887
  
• P. Muruganandam, S. K. Adhikari:
  Fortran programs for the time-dependent Gross-Pitaevskii equation in a fully anisotropic trap. 1888-1912
  
• Miroslav Morhác, Vladislav Matousek:
  Library of sophisticated functions for analysis of nuclear spectra. 1913-1940
  
• Alessandro Cafarella, Costas G. Papadopoulos, Malgorzata Worek:
  Helac-Phegas: A generator for all parton level processes. 1941-1955
  
• P. Domínguez-García, M. A. Rubio:
  JChainsAnalyser: an ImageJ-based stand-alone application for the study of magneto-rheological fluids. 1956-1960
  
• Massimiliano Bonomi, Davide Branduardi, Giovanni Bussi, Carlo Camilloni, Davide Provasi, Paolo Raiteri, Davide Donadio, Fabrizio Marinelli, Fabio Pietrucci, Ricardo A. Broglia, Michele Parrinello:
  PLUMED: A portable plugin for free-energy calculations with molecular dynamics. 1961-1972
  
• William J. Brouwer, Michael C. Davis, Karl T. Mueller:
  Optimized multiple quantum MAS lineshape simulations in solid state NMR. 1973-1982
  
• Paul Martinsen, Johannes Blaschke, Rainer Künnemeyer, Robert Jordan:
  Accelerating Monte Carlo simulations with an NVIDIA^® graphics processor. 1983-1989
  
• Panagiotis Vlachos, Ioannis Karafyllidis:
  Quantum game simulator, using the circuit model of quantum computation. 1990-1998
  
• I. V. Grossu, C. Besliu, M. V. Rusu, Al. Jipa, C. C. Bordeianu, D. Felea:
  Visual tool for estimating the fractal dimension of images. 1999-2001
  
• Sergei Manzhos, Koichi Yamashita, Tucker Carrington Jr.:
  Fitting sparse multidimensional data with low-dimensional terms. 2002-2012
  
• Evgeni S. Penev, Sotiria Lampoudi, Joan-Emma Shea:
  TiReX: Replica-exchange molecular dynamics using Tinker. 2013-2019
  

• Hoang-Binh Dy:
  A program to compute exact hydrogenic radial integrals and Einstein coefficients. 2020
  
• S. Fritzsche:
  Maple procedures for the coupling of angular momenta. An up-date of the Racah module. 2021-2023
  

• T. D. Pointon:
  Erratum to "Second-order, exact charge conservation for electromagnetic particle-in-cell simulation in complex geometry" [Computer Physics Communications 179 (2008) 535-544]. 2024
  

Volume 180, Number 11, November 2009

• J. Suarez, S. C. Farantos, S. Stamatiadis, L. Lathouwers:
  A method for solving the molecular Schrödinger equation in Cartesian coordinates via angular momentum projection operators. 2025-2033
  
• Songxin Liang, David J. Jeffrey:
  An efficient analytical approach for solving fourth order boundary value problems. 2034-2040
  
• Oleg Zatsarinny, Charlotte Froese Fischer:
  Atomic structure calculations using MCHF and BSR. 2041-2065
  
• Rio Yokota, Tetsu Narumi, Ryuji Sakamaki, Shun Kameoka, S. Obi, Kenji Yasuoka:
  Fast multipole methods on a cluster of GPUs for the meshless simulation of turbulence. 2066-2078
  
• Dong Xu, Jernej Stare, Andrew L. Cooksy:
  Solving the vibrational Schrödinger equation on an arbitrary multidimensional potential energy surface by the finite element method. 2079-2094
  
• Lukas Osterloh, Carlos Pérez, David Böhme, José María Baldasano, Christine Böckmann, Lars Schneidenbach, David Vicente:
  Parallel software for retrieval of aerosol distribution from LIDAR data in the framework of EARLINET-ASOS. 2095-2102
  
• Jacinto Javier Ibáñez, Vicente Hernández:
  Solving Differential Matrix Riccati Equations by a piecewise-linearized method based on the conmutant equation. 2103-2114
  
• S. Srinivas, R. Gayathri, M. Kothandapani:
  The influence of slip conditions, wall properties and heat transfer on MHD peristaltic transport. 2115-2122
  
• Yin-Long Zhao, Yin-Ping Liu, Zhi-Bin Li:
  A modified WTC algorithm for the Painlevé test of nonlinear variable-coefficient PDEs. 2123-2128
  
• German Urbina-Villalba, Aileen Lozsán, Kareem Rahn, Manuel S. Romero-Cano:
  Calculation of the stability ratio of suspensions using Emulsion Stability Simulations. 2129-2139
  
• Anthony J. C. Ladd:
  A fast random number generator for stochastic simulations. 2140-2142
  
• Johannes Blümlein, Manuel Kauers, Sebastian Klein, Carsten Schneider:
  Determining the closed forms of the O(s_S³) anomalous dimensions and Wilson coefficients from Mellin moments by means of computer algebra. 2143-2165
  
• Edoardo Milotti, Alessio Del Fabbro, Roberto Chignola:
  Numerical integration methods for large-scale biophysical simulations. 2166-2174
  
• Volker Blum, Ralf Gehrke, Felix Hanke, Paula Havu, Ville Havu, Xinguo Ren, Karsten Reuter, Matthias Scheffler:
  Ab initio molecular simulations with numeric atom-centered orbitals. 2175-2196
  
• Allen Caldwell, Daniel Kollár, Kevin Kröninger:
  BAT - The Bayesian analysis toolkit. 2197-2209
  
• M. M. Rashidi:
  The modified differential transform method for solving MHD boundary-layer equations. 2210-2217
  
• Johannes Blümlein:
  Structural relations of harmonic sums and Mellin transforms up to weight w=5. 2218-2249
  
• Xinyuan Wu, Xiong You, Jianlin Xia:
  Order conditions for ARKN methods solving oscillatory systems. 2250-2257
  
• Dao Thi Nhung, Le Duc Ninh:
  D0C: A code to calculate scalar one-loop four-point integrals with complex masses. 2258-2267
  
• Z.-C. Li, C.-S. Chien, H.-T. Huang, B.-W. Jeng:
  Superconvergence of bi-k-Lagrange elements for eigenvalue problems. 2268-2282
  
• Tobias F. Illenseer, Wolfgang J. Duschl:
  Two-dimensional central-upwind schemes for curvilinear grids and application to gas dynamics with angular momentum. 2283-2302
  

• Jakub T. Moscicki, Frederic Brochu, J. Ebke, Ulrik Egede, J. Elmsheuser, K. Harrison, R. W. L. Jones, H. C. Lee, Dietrich Liko, A. Maier, A. Muraru, Glen N. Patrick, Katarina Pajchel, W. Reece, B. H. Samset, M. W. Slater, A. Soroko, C. L. Tan, D. C. van der Ster, M. Williams:
  Ganga: A tool for computational-task management and easy access to Grid resources. 2303-2316
  
• T. Binoth, J.-Ph. Guillet, G. Heinrich, E. Pilon, T. Reiter:
  golem95: A numerical program to calculate one-loop tensor integrals with up to six external legs. 2317-2330
  
• Jingfang Huang, Jun Jia, Bo Zhang:
  FMM-Yukawa: An adaptive fast multipole method for screened Coulomb interactions. 2331-2338
  
• Alexei Bazavov, Bernd A. Berg:
  Program package for multicanonical simulations of U(1) lattice gauge theory. 2339-2347
  
• O. Peña, U. Pal:
  Scattering of electromagnetic radiation by a multilayered sphere. 2348-2354
  
• Thomas Müller, Frank Grave:
  Motion4D - A library for lightrays and timelike worldlines in the theory of relativity. 2355-2360
  
• J. Dobaczewski, W. Satula, B. G. Carlsson, J. Engel, P. Olbratowski, P. Powalowski, M. Sadziak, Jason Sarich, N. Schunck, A. Staszczak, M. V. Stoitsov, M. Zalewski, H. Zdunczuk:
  Solution of the Skyrme-Hartree-Fock-Bogolyubov equations in the Cartesian deformed harmonic-oscillator basis.: (VI) hfodd (v2.40h): A new version of the program. 2361-2391
  

• S. Nath:
  TERS v2.0: An improved version of TERS. 2392-2393
  
• Andrzej Daniluk:
  Model-Driven Development for scientific computing. An upgrade of the RHEEDGr program. 2394-2397
  
• C. C. Bordeianu, D. Felea, C. Besliu, Al. Jipa, I. V. Grossu:
  A new version of Scilab software package for the study of dynamical systems. 2398-2399
  

Volume 180, Number 12, December 2009

• N. Stanley Scott:
  Foreword.
  
• Phil G. Burke, Val Burke:
  Establishment of CPC and the Program Library.
  
• Xiaoxu Guan, C. J. Noble, O. Zatsarinny, Klaus Bartschat, Barry I. Schneider:
  ALTDSE: An Arnoldi-Lanczos program to solve the time-dependent Schrödinger equation. 2401-2409
  
• M. Plummer, E. A. G. Armour, A. C. Todd, C. P. Franklin, J. N. Cooper:
  'tripleint_cc': A program for 2-centre variational leptonic Coulomb potential matrix elements using Hylleraas-type trial functions, with a performance optimization study. 2410-2423
  
• N. Stan Scott, M. Penny Scott, Phil G. Burke, Timothy Stitt, V. Faro-Maza, Christophe Denis, A. Maniopoulou:
  2DRMP: A suite of two-dimensional R-matrix propagation codes. 2424-2449
  
• V. M. Burke, C. J. Noble, V. Faro-Maza, A. Maniopoulou, N. Stan Scott:
  FARM_2DRMP: A version of FARM for use with 2DRMP. 2450-2451
  
• Joe Pitt-Francis, Pras Pathmanathan, Miguel O. Bernabeu, Rafel Bordas, Jonathan Cooper, Alexander G. Fletcher, Gary R. Mirams, Philip Murray, James M. Osborne, Alex Walter, S. Jon Chapman, Alan Garny, Ingeborg M. M. van Leeuwen, Philip K. Maini, Blanca Rodríguez, Sarah L. Waters, Jonathan Whiteley, Helen M. Byrne, David Gavaghan:
  Chaste: A test-driven approach to software development for biological modelling. 2452-2471
  
• Iosif Legrand, Harvey B. Newman, Ramiro Voicu, Catalin Cirstoiu, Costin Grigoras, Ciprian Dobre, Adrian Muraru, Alexandru Costan, M. Dediu, Corina Stratan:
  MonALISA: An agent based, dynamic service system to monitor, control and optimize distributed systems. 2472-2498
  
• I. Antcheva, M. Ballintijn, B. Bellenot, M. Biskup, Rene Brun, N. Buncic, Philippe Canal, D. Casadei, O. Couet, V. Fine, L. Franco, G. Ganis, A. Gheata, D. Gonzalez Maline, Masaharu Goto, J. Iwaszkiewicz, A. Kreshuk, D. Marcos Segura, R. Maunder, L. Moneta:
  ROOT - A C++ framework for petabyte data storage, statistical analysis and visualization. 2499-2512
  
• Stefan J. Zasada, Peter V. Coveney:
  Virtualizing access to scientific applications with the Application Hosting Environment. 2513-2525
  
• Marc Baboulin, Alfredo Buttari, Jack Dongarra, Jakub Kurzak, Julie Langou, Julien Langou, Piotr Luszczek, Stanimire Tomov:
  Accelerating scientific computations with mixed precision algorithms. 2526-2533
  
• Danny van Dyk, Markus Geveler, Sven Mallach, Dirk Ribbrock, Dominik Göddeke, Carsten Gutwenger:
  HONEI: A collection of libraries for numerical computations targeting multiple processor architectures. 2534-2543
  
• N. Sanna, Isabella Baccarelli, G. Morelli:
  SCELib3.0: The new revision of SCELib, the parallel computational library of molecular properties in the Single Center Approach. 2544-2549
  
• N. Sanna, Isabella Baccarelli, G. Morelli:
  The VOLSCAT package for electron and positron scattering of molecular targets: A new high throughput approach to cross-section and resonances computation. 2550-2562
  
• Akila Gothandaraman, Gregory D. Peterson, G. Lee Warren, Robert J. Hinde, Robert J. Harrison:
  A Hardware-Accelerated Quantum Monte Carlo framework (HAQMC) for N-body systems. 2563-2573
  
• JunKyu Lee, Yu Bi, Gregory D. Peterson, Robert J. Hinde, Robert J. Harrison:
  HASPRNG: Hardware Accelerated Scalable Parallel Random Number Generators. 2574-2581
  
• Xavier Gonze, B. Amadon, P.-M. Anglade, Jean-Michel Beuken, F. Bottin, P. Boulanger, F. Bruneval, D. Caliste, R. Caracas, M. Côté, Thierry Deutsch, L. Genovese, Ph. Ghosez, M. Giantomassi, S. Goedecker, D. R. Hamann, P. Hermet, F. Jollet, G. Jomard, S. Leroux:
  ABINIT: First-principles approach to material and nanosystem properties. 2582-2615
  
• S. D. Kenny, A. P. Horsfield:
  Plato: A localised orbital based density functional theory code. 2616-2621
  
• Dario Alfè:
  PHON: A program to calculate phonons using the small displacement method. 2622-2633
  
• Y. C. Lee, H. M. Thompson, P. H. Gaskell:
  FILMPAR: A parallel algorithm designed for the efficient and accurate computation of thin film flow on functional surfaces containing micro-structure. 2634-2649
  
• A. G. Peeters, Y. Camenen, F. J. Casson, W. A. Hornsby, A. P. Snodin, D. Strintzi, G. Szepesi:
  The nonlinear gyro-kinetic flux tube code GKW. 2650-2672
  
• Manhui Wang, Andrew J. May, Peter J. Knowles:
  Parallel programming interface for distributed data. 2673-2679
  
• Mirco Zerbetto, Antonino Polimeno, Vincenzo Barone:
  Simulation of electron spin resonance spectroscopy in diverse environments: An integrated approach. 2680-2697
  
• A. Hart, Georg M. von Hippel, R. R. Horgan, E. H. Müller:
  Automated generation of lattice QCD Feynman rules. 2698-2716
  
• Karl Jansen, Carsten Urbach:
  tmLQCD: A program suite to simulate Wilson twisted mass lattice QCD. 2717-2738
  
• Peter A. Boyle:
  The BAGEL assembler generation library. 2739-2748
  

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