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Avendano avi AVX awpmd AWPMD Axel Ay Ayton Az azimuthal ba Babadi backcolor backend Baczewski Bal balancer Balasubramanian Ballenegger Bammann Barashev barostat barostated barostating barostatted barostatting Barostatting barosttating Barrat Bartels barycenter barye Bashford Baskes Batra Bayly bb bcc bcolor bdiam Beckman behaviour Belak Bellott benchmarking Bennet Berardi Beraun berendsen Berendsen berger Berkowitz berlin Berne Beutler bgq Bh biaxial Biersack bigint bilayer bilayers binsize binstyle biomolecular biomolecule Biomolecules Biophys Biosym bisectioning bispectrum Bispectrum bitmapped bitrate bitrates Bitzek Blaise blanchedalmond blocksize blueviolet bn bni bodyflag bodystyle Bogaerts Bogusz Bohrs bondchk bondings bondmax bondtype Bonet boolean Boresch Botero Botu Bouguet bount boxcolor bpclermont br Branicio brennan Brilliantov Broadwell brownian brownw Bryantsev btype buckPlusAttr bugfixes Bulatov burlywood Bussi Buyl Bybee bz cadetblue caltech Caltech Campana Cao 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crossterms Crozier crystallisation Crystallogr Csanyi csh cshrc CSiC csld cstyle csvr Ctypes cuda Cuda CUDA CuH cuthi cutinner cutlo cutmax cutoffA cutoffC cuu cv Cv Cval cvar cvff cwiggle Cygwin Cyrot cyrstals Daivis Dammak dampflag Darden darkblue darkcyan darkgoldenrod darkgray darkgreen darkkhaki darkmagenta darkolivegreen darkorange darkorchid darkred darksalmon darkseagreen darkslateblue darkslategray darkturquoise darkviolet Das Dasgupta datafile datums Davidchack Daw dcd de dE De debye Debye decompositions deeppink deepskyblue defauls defgrad deformable degress del Dellago delocalization delocalized delr deltaHf Dendrimer dendtritic Denniston dephase dephasing depositied dequidt Dequidt der Derjagin Derlet Deserno Destree detils Devanathan Devemy deviatoric Devine df dfftw DFT dia diag diagonalized Diallo diel differentiable diffusivity dihedral dihedrals Dihedrals dihydride Dij dimdim dimensionality dimgray dipolar dir Direc dirs discoverable discretization discretized disp displacment dissipative Dissipative distro divdes dl dlambda DLAMMPS dlopen dm dmax Dmax Dodds dodgerblue dof Donadio dotc Doty Doye dpd DPD dpdTheta DPhil dr dR dragforce Drautz dreiding Dreiding drfourth drho drsquared drude Drude DRUDE dsf dsmc dt du dU Dudarev Duin Dullweber Dunbrack Dunweg Dupont dUs dV dvector dVx dW dx dy dyne dynes Dyre Eaa Eaat Eacn eam eangle eatom Eba ebond ebt Ec ecoul ecp edihed edim edip edu ee Eebt eFF efield eflux Eggebrecht ehanced ehex eHEX Ei Eigensolve Eike eim eimp Eindhoven Ejtehadi El elaplong Electroneg electronegative electronegativity Eleftheriou ElementN elif Elj Ellad ellipsoidflag elong elt emacs Embt emi emol eN energetics energyCorr eng Engility engilitycorp engrot engtrans engvib enthalpy envoke eos epair epcc Epp Epq eps Epton eq eqch Eqp Eqq Eqs equi equil equilibrate equilibrated equilibrating equilibration Equilibria equilibribum equilization eradius erate erc erfc Erhart erorate erose erotate Ertas ervel esu esub et etag etap ethernet etol etot etotal Europhys ev eV evalue Evanseck evdwl Everaers evirials ewald Ewald excitations excv exe executables extrema ey ez factorizable factorizations Faken Farago Fasolino Fava fbMC Fc fcc fcm Fd fdotr fdt Fehlberg Fellinger femtosecond femtoseconds fene Fennell fep FEP fermi Fermionic Ferrand fexternal Fexternal ffield ffmpeg FFmpeg ffplay fft fftbench fftw fhg Fi figshare Fij filenname fileper Fincham Finchham Finnis Fiorin fixID fj Fji flagfld flagHI flaglog flagN flagVF fld floralwhite flv fmackay fmag fmass fmsec fN Fn fname fno foces Fock Fogarty Foiles fopenmp forcefield forestgreen formulae Fortran fourier fp fphi fPIC fplo Fqq Fraige framerate Fraunhofer Freitas Frenkel Friedrichs frontend Frontends fs fstyle ftol fugacity Fumi func funcs functionals funroll fx fy fz Gahler gainsboro Galindo gammaA gammaFactor gammaR Gan GaN ganzenmueller Ganzenmuller Gao Gathert gauss gaussian Gaussians Gavhane gayberne gcc gcmc gdot GeC georg Georg Germann Germano gerolf Gerolf gettimeofday gewald Gezelter Gflop gfortran ghostwhite Giacomo gif gifsicle Gillan Gingold github Github gjf gjwagne gl gld gle globbing Glosli Glotzer gmail gmake gmask Gmask Gordan GPa gpu gpuID gpus graining Graining Grama grana granregion graphene Greathouse greenyellow Greffet grem gREM Grest Grigera grmask Grmask gromacs Gromacs Gronbech Groot groupbig Grueneisen gsmooth gstyle GTL gui guidline Gumbsch Gunsteren Gunzenmuller Guo gwald gz gzipped Haak Hafskjold Halperin Hamaker haptic Hara Harpertown Harting Hartree Hartrees Hasan Hayoun Hayre hbcut hbnewflag hbond hcp heatconduction Hebenstreit Hecht Heenen Hendrik Henin Henkelman henrich Henrich heristics Herrmann Hertizian hertzian Hertzsch hexahedrons hexatic hexorder Heyes HfO hgrid Hibbs Higdon Hilger histo histogrammed histogramming hmaktulga hoc Hofling Holian Holm holonomic Homebrew hooke Hookean hotpink howto Howto Hoyt hstyle html hTST hu hugoniostat Hugoniostat Hugoniot Hura hwloc hydrogens hydrostatic 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Janssens Jaramillo Jarzynski jatempl jea jec Jeffers jewett Jewett ji Jiang Jiao jik JIK jku Joannopoulos Jochim Jonsson Jorgensen jparam jpeg jpeglib jpg JPG jpl Jth jtype jtypeN Julien Jupyter Justo Jusufi Jx Jy Jz jzimmer Kadiri Kalia Kamberaj Kapfer Karlsruhe Karplus Karttunen kate Kaufmann Kayser kb kB kbit kbits kcal Kd ke KE Keblinski keflag Keir Kelchner Kelkar Kemper Keyes Khersonskii Khvostov Ki kim kJ kk Klahn Klapp Kloss kmax Kmax knl Kohlmeyer kokkos Kolafa Kollman Kondor konglt Koning Kooser Koskinen Kosztin Kp Kraker Kraus Kremer Kress kspace Kspace KSpace Kspring kT kth Kth Kub Kubo Kumagai Kumar Kuronen Kusters Kutta kx Lackmann Ladd lagrangian lambdai lamda lammps Lammps LAMMPS lammpsplot Lamoureux Landron langevin Langevin Langston larentzos Larentzos Laroche lars latencies lattce Laupretre lavenderblush lawngreen lB lbl LBtype lcbop ld ldfftw ldg Lechman Lehoucq Leimkuhler leiu lemonchiffon Lenart lennard Lennard Lenosky Lett Leuven Lewy lgvdw Liang libAtoms libdir libgpu libjpeg liblammps Liblammps liblink libmeam libmpi libmpich libpng libpoems librar libreax libs ligand lightblue lightcoral lightcyan lightgoldenrodyellow lightgreen lightgrey lightpink lightsalmon lightseagreen lightskyblue lightslategray lightsteelblue lightyellow Likhtman limegreen Lindahl lineflag lineforce linesearch linux Liouville Lisal listfile Littmark Liu Livermore lj lm lmp lmpptr lmpqst lmpsdata Lmpsdata lmptype ln localTemp localvectors logfile logfreq logicals Lomdahl lookups Lookups LoopVar Lorant lossy lps lrt lsfftw ltbbmalloc lubricateU lucy Lussetti Lustig lx ly Lybrand Lyulin lz Mackay Mackrodt macroparticle Madura Magda Maginn mainboards makefile Makefile makefiles Makefiles makelist Makse malloc Malolepsza Manby Mandadapu Manh manifoldforce Manolopoulos manybody MANYBODY Maras Marrink Marsaglia Marseille Martyna Mashayak massless masstotal Matchett matlab matplotlib Mattox Mattson maxangle maxbond maxeval Maxfoo maxit maxiter maxsize maxspecial maxSteps maxX mbt Mbytes MBytes McLachlan md mdf meam meamf mech mechanice mechanim Mecke mediumaquamarine mediumblue mediumorchid mediumpurple mediumseagreen mediumslateblue mediumspringgreen mediumturquoise mediumvioletred Mees Mehl Mei Meloni Melrose Mem memalign MEMALIGN membered Mendelev mer Meremianin Merz mescscopic meshless meso mesocopic mesoparticle mesoscale mesoscopic metadynamics Metadynamics methine Metin Mezei mgpt MGPT mgptfast mh micelle michael michele Mickel microcanonical microelastic microporous Microscale microsec midnightblue mie Mie Mikami Militzer Minary mincap minima minimizations minimizer minimizers minorder minSteps mintcream Mintmire mis Mises Mishin Mishra mistyped mistyrose Mj mK mkdir mkv mlparks mlutiple modc Modell modelled modelling Modelling Modine mol Mol molfile Molfile moltemplate momoner Monaghan Monaghans monodisperse monodispersity monovalent Montalenti Montero Morefoo morris Morriss morse Moseler Moskalev mov mpi Mpi MPI mpicc mpich mpicxx mpiexec mpiio mpirun mplayer mscg MSCG msd msi MSI msm msse msst Mtchell Mth mtk Mtotal Muccioli Mukherjee Mulders multibody Multibody multicenter multicmd multicore multielectron multinode multiphysics multiscale multisectioning multithreading Multithreading Mundy Murdick Murtola Murty Muser mutli mutliple muVT mux muy muz mv mV Mvapich MxN myCompute myIndex mylammps mysocket myTemp myVec nabla Nakano namespace namespaces NaN Nangletype nangletypes Nangletypes nano nanoindentation Nanoletters nanometer nanometers nanoparticles nanosec Narulkar nasa nasr Natoli natoms Natoms Nattempt navajowhite Navier nb Nbin Nbins nbody Nbody nbondtype Nbondtype nbondtypes Nbondtypes nBOt nbrhood Nbtypes nc Nc nchunk Nchunk ncoeff ncorr ncount nd Ndihedraltype Ndirango ndof Ndof Ndouble ndx neb Neelov neighbouring nelem Nelement Nelements nemd netcdf Neumann nevery Nevery Newns newtype Neyts Nf nfile Nfile Nfreq ng Ng nghost Nghost Ngpu nh nharmonic nhc NiAlH Nicklas Nimpropertype Ninteger Nissila nist nitrides niu Nk nl nlen Nlines nlocal Nlocal Nlog nm Nm Nmax Nmin Nmols nn Nocedal nocite nocoeff nodeless noforce Noid Nonbond nonbonded nonequilibrium nongauss nonGaussian nonlocal Nonlocal Noordhoek nopreliminary Nord norder Nordlund normals Noskov noslip noticable noutcol Noutput noutrow Novik Novint np Npair Npairs nparticle npernode nph NpH Nphi nphug nprocs Nprocs npt nr Nr Nrecompute Nrepeat nreset Nrho nrun Ns Nsample nsec Nskip nsq Nstart nstats Nstep Nsteplast Nstop Nswap Nt Ntable ntheta nthreads Ntptask Ntype ntypes Ntypes nucleotides nulcear num numa numactl numerics numpy Numpy Nvalue Nvaluelast Nvalues nvc nvcc nve nvidia Nvidia nvk nvt Nwait nx Nx nxnodes ny Ny nz Nz octahedral octants ohenrich ok OKeefe OKeefe O'Keefe oldlace Oleinik Olfason olivedrab Ollila omegaDD omegax omegay omegaz omp OMP onelevel oneway onn ons OO openKIM OpenMP opls Oppelstrup optionns orangered orderomg organised organometallic orientational orientorder Orlikowski ornl Ornstein Orsi 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pN png Poiseuille Polak polarizabilities polarizability polarizable Polarizable polarizables Politano polyA polybond polydisperse polydispersity popen popstore pos Poschel posix Postma postprocessing potin Pourtois powderblue ppn pppm prd pre Pre prec preexponential prefactor prefactors prepend preprint preprocessor printf printflag Priya proc Proc procs Prony ps Ps pscreen pscrozi psec pseudodynamics pseudopotential Pstart Pstop pstyle Ptarget pthread pthreads ptr pu purdue pushded pushstore pvar pw px Px pxx Pxx Pxy py Py pydir pylammps PyLammps pymol pypar Pyy pz Pz Pzz qbmsst qcore qdist qE qeq QeQ QEq qfile qi Qi qj Qj Ql qm Qmin qmmm qmol qoffload qopenmp qoverride qtb Quant quantic quartic quaternion quaternions quati quatj quatk quatw Queteschiner radian radians Rafferty rahman Rahman Raman ramped Ramprasad randomizations Raphson Rappe Ravelo rc Rc Rcm Rcmx Rcmy Rcut rcutfac rdc rdf README realtime reamin reax ReaxFF rebalance rebalancing rebo recentered recentering recursing 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