diff --git a/doc/utils/sphinx-config/false_positives.txt b/doc/utils/sphinx-config/false_positives.txt index c6cd74f613..63c6542237 100644 --- a/doc/utils/sphinx-config/false_positives.txt +++ b/doc/utils/sphinx-config/false_positives.txt @@ -174,6 +174,7 @@ bcc bcolor bdiam Beckman +behaviour Belak Bellott benchmarking @@ -250,7 +251,6 @@ Buyl Bybee bz cadetblue -calcalation caltech Caltech Campana @@ -323,6 +323,7 @@ coaxstk codebase coeff Coeff +CoefficientN coeffs Coeffs Colberg @@ -772,8 +773,14 @@ funroll fx fy fz +Gahler gainsboro +Galindo +gammaA gammaFactor +gammaR +Gan +GaN ganzenmueller Ganzenmuller Gao @@ -785,35 +792,50 @@ 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 @@ -823,12 +845,18 @@ Grest Grigera grmask Grmask +gromacs +Gromacs Gronbech +Groot +groupbig Grueneisen +gsmooth gstyle GTL gui guidline +Gumbsch Gunsteren Gunzenmuller Guo @@ -838,41 +866,62 @@ 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 @@ -882,16 +931,27 @@ hwloc hydrogens hydrostatic hydrostatically +Hynninen +Hyoungki +hyperradius hyperspherical hyperthreaded +Hyperthreading +ibar ibm icc icosohedral +idealgas +ideaology +IDR +ielement ieni ifdefs iff ifort +Ihle ij +ijk ijkl ik Ikeshoji @@ -905,21 +965,27 @@ Imageint Imagemagick imd Impey +imporopers impropers Impropers +imroper includelink incompressible +incrementing indenter indenters indianred inertiax inertiay inertiaz +infty inhomogeneities inhomogeneous init initializations +InP inregion +integrations integrators Integrators intel @@ -927,7 +993,11 @@ intelmpi interal interatomic Interatomic +interconvert +intergation +interial intermolecular +interstitials intra intramolecular ints @@ -938,8 +1008,11 @@ ionocovalent iparam ipi ipp +IPython +Isele isenthalpic iso +isodemic isoenergetic isoenthalpic isokinetic @@ -947,8 +1020,10 @@ isomorphism isothermal isotropically isovolume +Isralewitz iteratively Ith +Itsets itype itypeN Ivector @@ -969,20 +1044,28 @@ Iyz iz izcm ized +Izrailev +Izumi Izvekov izz Izz +Jacobsen jagreat james Janssens Jaramillo +Jarzynski jatempl +jea jec Jeffers jewett Jewett +ji Jiang Jiao +jik +JIK jku Joannopoulos Jochim @@ -994,14 +1077,19 @@ jpeglib jpg JPG jpl +Jth jtype jtypeN Julien +Jupyter +Justo +Jusufi Jx Jy Jz jzimmer Kadiri +Kalia Kamberaj Kapfer Karlsruhe @@ -1009,6 +1097,7 @@ Karplus Karttunen kate Kaufmann +Kayser kb kB kbit @@ -1017,29 +1106,40 @@ 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 @@ -1049,17 +1149,23 @@ kth Kth Kub Kubo +Kumagai Kumar +Kuronen Kusters Kutta kx +Lackmann Ladd +lagrangian +lambdai lamda lammps Lammps LAMMPS lammpsplot Lamoureux +Landron langevin Langevin Langston @@ -1068,18 +1174,31 @@ 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 @@ -1095,6 +1214,7 @@ libpoems librar libreax libs +ligand lightblue lightcoral lightcyan @@ -1110,12 +1230,16 @@ lightsteelblue lightyellow Likhtman limegreen +Lindahl lineflag lineforce linesearch linux Liouville Lisal +listfile +Littmark +Liu Livermore lj lm @@ -1130,22 +1254,31 @@ 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 @@ -1153,14 +1286,18 @@ Makefile makefiles Makefiles makelist +Makse malloc Malolepsza +Manby Mandadapu +Manh manifoldforce Manolopoulos manybody MANYBODY Maras +Marrink Marsaglia Marseille Martyna @@ -1169,22 +1306,27 @@ 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 @@ -1198,14 +1340,20 @@ mediumslateblue mediumspringgreen mediumturquoise mediumvioletred +Mees +Mehl +Mei Meloni +Melrose Mem memalign MEMALIGN membered +Mendelev mer Meremianin Merz +mescscopic meshless meso mesocopic @@ -1214,21 +1362,29 @@ 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 @@ -1239,13 +1395,18 @@ mintcream Mintmire mis Mises +Mishin Mishra mistyped mistyrose +Mj mK +mkdir mkv mlparks mlutiple +modc +Modell modelled modelling Modelling @@ -1256,11 +1417,18 @@ molfile Molfile moltemplate momoner +Monaghan Monaghans +monodisperse +monodispersity +monovalent +Montalenti Montero Morefoo +morris Morriss morse +Moseler Moskalev mov mpi @@ -1279,40 +1447,64 @@ 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 @@ -1324,41 +1516,67 @@ 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 @@ -1366,7 +1584,12 @@ nm Nm Nmax Nmin +Nmols +nn +Nocedal nocite +nocoeff +nodeless noforce Noid Nonbond @@ -1374,8 +1597,17 @@ nonbonded nonequilibrium nongauss nonGaussian +nonlocal +Nonlocal +Noordhoek nopreliminary +Nord +norder +Nordlund normals +Noskov +noslip +noticable noutcol Noutput noutrow @@ -1390,23 +1622,36 @@ 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 @@ -1415,6 +1660,7 @@ numerics numpy Numpy Nvalue +Nvaluelast Nvalues nvc nvcc @@ -1426,33 +1672,45 @@ nvt Nwait nx Nx +nxnodes ny Ny nz Nz octahedral +octants ohenrich +ok +OKeefe OKeefe 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 @@ -1464,17 +1722,21 @@ outmost outpur outputss outut +overlayed overviewed Ovito oxdna oxDNA +oxygens padua Padua palegoldenrod palegreen paleturquoise palevioletred +Panagiotopoulos Pandit +Papaconstantopoulos papayawhip paquay Paquay @@ -1491,8 +1753,10 @@ parametrization parametrized params Parinello +parmin Parrinello Partay +partices Particuology pastewka Pastewka @@ -1510,30 +1774,45 @@ pe Peachey peachpuff Pearlman +Pedersen Peng peratom perfoms +Pergamon peri Peridymaics peridynamic Peridynamic peridynamics Peridynamics +Perram persp Persp peru Peskin +Pettifor pfactor ph Phillpot phonon +phophorous +phosphide +Physica physik +picocoulomb +picocoulombs +picogram +picograms picosecond picoseconds +picosend pid Pieter pimd +Pisarev +Pishevar Pitera +pj pjintve planeforce Plathe @@ -1541,21 +1820,31 @@ Plimpton plog ploop PloS +plt +pmb 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 @@ -1563,10 +1852,15 @@ prd pre Pre prec +preexponential prefactor +prefactors +prepend preprint preprocessor printf +printflag +Priya proc Proc procs @@ -1576,6 +1870,7 @@ Ps pscreen pscrozi psec +pseudodynamics pseudopotential Pstart Pstop @@ -1590,30 +1885,45 @@ 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 @@ -1624,9 +1934,13 @@ quatw Queteschiner radian radians +Rafferty +rahman Rahman Raman ramped +Ramprasad +randomizations Raphson Rappe Ravelo @@ -1641,14 +1955,19 @@ rdc rdf README realtime +reamin reax ReaxFF rebalance rebalancing +rebo recentered recentering +recursing +Ree regoin Reinders +relect relesed relTol remappings @@ -1660,6 +1979,8 @@ Reneighboring reneighborings Rensselaer reparametrizing +representable +repuls rescale rescaled rescales @@ -1667,12 +1988,17 @@ rescaling Rescaling respa RESPA +respecified responder +resquared REsquared restartfile +rethrowing rewrap +rezwanur rfac rfile +rg Rg Rhaphson rheological @@ -1681,13 +2007,16 @@ Rhodo rhodopsin rhosum Ri +Ribiere richard rigidID rigidify rij Rij RIj +Rin Rino +RiRj Risi Rix Riy @@ -1701,11 +2030,13 @@ rmask Rmask rmax Rmax +rmdir rmin Rmin RMS rNEMD ro +Rockett Ronchetti Rosati Rossky @@ -1713,19 +2044,28 @@ rosybrown rotationally rotationsl royalblue +rozero Rperp rRESPA Rspace +Rubia +Rudd Rudra Rudranarayan Runge runtime +Rutuparna rx +Ryckaert Rycroft +Rydbergs Rz saddlebrown Sadigh saed +safezone +Safran +Sagui Salles sandia Sandia @@ -1737,7 +2077,12 @@ Scalable scalexy scalexz scaleyz +Schaik +Schlitter +Schmid +Schoen Schulten +Schunk Schwen scriping Scripta @@ -1745,9 +2090,11 @@ sdk seagreen Secor sed +segmental sellerio Sellerio semiaxes +semimetals Semin Sensable setfl @@ -1755,26 +2102,42 @@ setforce setmask Setmask setpoint +setvel severeal sfftw Sg Shan +shapex +shapey +shapez +shapshot +shardlow Shardlow shawn Shen +Shenderova Shiga Shinoda shockvel +shoule +si SiC +Siepmann Sij Sikandar +Silbert +Silling +Simul simulataneous simulatoins Sinnott sinusoid sinusoidally +SiO Sirk Sival +sizeI +sizeJ sizex sjplimp sjtu @@ -1782,6 +2145,9 @@ skyblue slateblue slategray slater +Slepoy +sligthly +Sliozberg sllod smallint Smallint @@ -1793,9 +2159,17 @@ Smit smtbq sna snad +snapcoeff +snaphots +snapparam snav Sodani +Soderlind +softed solvated +Sorensen +soundspeed +Souza sp spacings Spearot @@ -1804,32 +2178,56 @@ sph SPH spheriods spparks +Springer springgreen sqrt src srd +Srolovitz +srp srun +ss ssao stamoore stanford +Starikov +startstep +Startstep +statcoul +statcoulombs +statvolt stdin steelblue +Stegailov Steinhardt +Steinhauser +Stepaniants stepwise +Stesmans Stillinger +stk Stockmayer +Stoddard stoichiometric +stoichiometry Stokesian Stoll +stopstep Stouch Straatsma Stratford Straub +strcmp streitz Streitz +Streiz +strided +strietz Stukowski +stylecomputes Su subbox +subcutoff subdirectory subdomains subinterval @@ -1838,13 +2236,19 @@ Subramaniyan subscripted subscripting substeps +substyle +substyles sudo Sukumaran sumsq Sunderland superset +supersphere +Supinski surc +surfactants sw +Swegat swiggle Swiler Swol @@ -1854,15 +2258,21 @@ sy Sy symplectic Synechococcus +sys sysdim sysmte +Syst Sz Tabbernor +tabinner Tadmor tagint Tait +taitwater Tajkhorshid +tanh taskset +taubi tchain Tchain Tcom @@ -1874,21 +2284,31 @@ Telsa tempCorrCoeff templated Templeton +ters tersoff Tersoff tesselation tesselations Tetot tex +tfmc +tfMC th Thakkar Thakker +thb +thei +Theor thermalization thermalize thermalized thermalizing thermo +thermochemical +thermochemistry thermodynamic +thermodynamically +Thermophysical thermostate thermostated thermostates @@ -1897,44 +2317,75 @@ Thermostating thermostatted thermostatting Thermostatting +Thes +Thess Thexe +Thijsse Thirumalai +threebody +thrid +thylakoid THz +Tij Tildesley timespan +timestamp +timestamps timestep timestepping timesteps +TiN +TiO +Tirrell Titer +Tji +Tk +Tkin tloop tlsph +tmax Tmax tmd Tmin tmp +tN Tobias tol topologies Torder torsions +Tosi +Toukmaji +Toxvaerd +tpa +tpc +tptask tqx tqy tqz +tradeoff traj +transferability translational trate +Tref Tretyakov tri +triangleflag triclinic triflag trigonal trilinear +tripflag tris +trj trott Trott Trung tscale Tschopp +Tsige +Tsrd Tstart tstat Tstop @@ -1946,11 +2397,16 @@ tu Tuckerman tue Turkand +Tutein +twobody twojmax Tx txt +typeI +typeJ typeN Tz +Tzou ub Uberuaga uChem @@ -1958,12 +2414,14 @@ uCond Uhlenbeck Ui uk +ul uloop ulsph uMech umin Umin un +unary unbonded uncomment uncompute @@ -1978,21 +2436,37 @@ unix unoptimized unpadded unphysical +unphysically unscaled +unsets +unshifted +unsmoothed +unsolvated +unsplit unstrained untar +untilted upenn +upto Urbana +usec userguide usr util utils +utsa Uttormark uvm uwo vacf +valent Valeriu valgrind +Valone +valuev +Valuev +valus +valuse Varshalovich Varshney vashishta @@ -2002,21 +2476,27 @@ Vcm vdim vdisplace vec +vectorial vectorization vectorized Vectorized vel +velocites +Verlag verlet Verlet ves vhi vibrational +Vij Vikas virial Virial +virialmode virials virtualenv virutal +viscoelastic viscoelasticity viscosities viscously