diff --git a/src/EFF/atom_vec_electron.cpp b/src/EFF/atom_vec_electron.cpp index 76d6a98bcd..5d600b5037 100644 --- a/src/EFF/atom_vec_electron.cpp +++ b/src/EFF/atom_vec_electron.cpp @@ -28,7 +28,7 @@ static const char cite_user_eff_package[] = " author = {A. Jaramillo-Botero and J. Su and A. Qi and Goddard, III, W. A.},\n" " title = {Large-Scale, Long-Term Nonadiabatic Electron Molecular Dynamics for Describing " "Material Properties and Phenomena in Extreme Environments},\n" - " journal = {J.~Comp.~Chem.},\n" + " journal = {J.~Comp.\\ Chem.},\n" " year = 2011,\n" " volume = 32,\n" " number = 3,\n" diff --git a/src/EXTRA-FIX/fix_electron_stopping_fit.cpp b/src/EXTRA-FIX/fix_electron_stopping_fit.cpp index f35f4ce0dd..aa3e7fc867 100644 --- a/src/EXTRA-FIX/fix_electron_stopping_fit.cpp +++ b/src/EXTRA-FIX/fix_electron_stopping_fit.cpp @@ -35,10 +35,10 @@ using namespace FixConst; // --------------------------------------------------------------------- static const char cite_fix_electron_stopping_fit_c[] = - "fix electron/stopping/fit command: doi:10.1063/1.5022471\n\n" + "fix electron/stopping/fit command: doi:10.1063/1.5022471, doi:10.1103/PhysRevB.102.024107\n\n" "@Article{Stewart2018,\n" - " author = { J. A. Stewart and G. Brookman and P. Price and M. Franco and W. Ji and K. Hattar and R. Dingreville },\n" - " title = { Characterizing Single Isolated Radiation-Damage Events from Molecular Dynamics via Virtual Diffraction Methods },\n" + " author = {J. A. Stewart and G. Brookman and P. Price and M. Franco and W. Ji and K. Hattar and R. Dingreville},\n" + " title = {Characterizing Single Isolated Radiation-Damage Events from Molecular Dynamics via Virtual Diffraction Methods},\n" " journal = {Journal of Applied Physics},\n" " year = {2018},\n" " volume = {123},\n" @@ -46,13 +46,13 @@ static const char cite_fix_electron_stopping_fit_c[] = " pages = {165902}\n" "}\n\n" "@Article{Lee2020,\n" - " author = { C.W. Lee and J.A. Stewart and S.M. Foiles and R. Dingreville and A. Schleife },\n" - " title = { Multiscale simulations of electron and ion dynamics in self-irradiated silicon },\n" - " journal = { Physical Review B },\n" - " year = { 2020 },\n" - " volume = { 102 },\n" - " number = { 2 },\n" - " pages = { 024107 }\n" + " author = {C. W. Lee and J. A. Stewart and S. M. Foiles and R. Dingreville and A. Schleife },\n" + " title = {Multiscale Simulations of Electron and Ion Dynamics in Self-Irradiated Silicon},\n" + " journal = {Physical Review~B},\n" + " year = {2020},\n" + " volume = {102},\n" + " number = {2},\n" + " pages = {024107}\n" "}\n\n"; // --------------------------------------------------------------------- diff --git a/src/EXTRA-FIX/fix_pafi.cpp b/src/EXTRA-FIX/fix_pafi.cpp index f0932c94ff..1326dcc44a 100644 --- a/src/EXTRA-FIX/fix_pafi.cpp +++ b/src/EXTRA-FIX/fix_pafi.cpp @@ -43,8 +43,8 @@ static const char cite_fix_pafi_package[] = "citation for fix pafi: doi:10.1103/PhysRevLett.120.135503\n\n" "@article{SwinburneMarinica2018,\n" "author={T. D. Swinburne and M. C. Marinica},\n" - "title={Unsupervised Calculation of Free Energy Barriers in Large " - "Crystalline Systems},\n" + "title={Unsupervised Calculation of Free Energy Barriers in Large\n" + " Crystalline Systems},\n" "journal={Physical Review Letters},\n" "volume={120},\n" "number={13},\n" diff --git a/src/EXTRA-FIX/fix_ti_spring.cpp b/src/EXTRA-FIX/fix_ti_spring.cpp index 48babd57a2..e44afdba01 100644 --- a/src/EXTRA-FIX/fix_ti_spring.cpp +++ b/src/EXTRA-FIX/fix_ti_spring.cpp @@ -35,7 +35,7 @@ using namespace LAMMPS_NS; using namespace FixConst; static const char cite_fix_ti_spring[] = - "ti/spring command:\n\n" + "ti/spring command: doi:10.1016/j.commatsci.2015.10.050\n\n" "@article{freitas2016,\n" " author={Freitas, Rodrigo and Asta, Mark and de Koning, Maurice},\n" " title={Nonequilibrium Free-Energy Calculation of Solids Using {LAMMPS}},\n" diff --git a/src/EXTRA-FIX/fix_ttm_mod.cpp b/src/EXTRA-FIX/fix_ttm_mod.cpp index 8c6919d400..539b7e1c19 100644 --- a/src/EXTRA-FIX/fix_ttm_mod.cpp +++ b/src/EXTRA-FIX/fix_ttm_mod.cpp @@ -51,7 +51,7 @@ static const char cite_fix_ttm_mod[] = "fix ttm/mod command: doi:10.1088/0953-8984/26/47/475401, doi:10.1002/ctpp.201310025\n\n" "@article{Pisarev2014,\n" "author = {Pisarev, V. V. and Starikov, S. V.},\n" - "title = {{Atomistic Simulation of Ion Track Formation in {UO$_2$}.}},\n" + "title = {Atomistic Simulation of Ion Track Formation in {UO$_2$}.},\n" "journal = {J.~Phys.\\ Condens.\\ Matter},\n" "volume = {26},\n" "number = {47},\n" diff --git a/src/EXTRA-MOLECULE/dihedral_table_cut.cpp b/src/EXTRA-MOLECULE/dihedral_table_cut.cpp index 986d9f1773..4830516b1d 100644 --- a/src/EXTRA-MOLECULE/dihedral_table_cut.cpp +++ b/src/EXTRA-MOLECULE/dihedral_table_cut.cpp @@ -36,7 +36,7 @@ using namespace LAMMPS_NS; using namespace MathConst; static const char cite_dihedral_tablecut[] = - "dihedral_style table/cut command: doi:10.1021/acs.jctc.7b01229\n\n" + "dihedral_style table/cut command: doi:10.1021/acs.jctc.7b01229\n\n" "@Article{Salerno17,\n" " author = {K. M. Salerno and N. Bernstein},\n" " title = {Persistence Length, End-to-End Distance, and Structure of Coarse-Grained Polymers},\n" diff --git a/src/EXTRA-PAIR/pair_momb.cpp b/src/EXTRA-PAIR/pair_momb.cpp index fb18508c1a..d8b6e04d11 100644 --- a/src/EXTRA-PAIR/pair_momb.cpp +++ b/src/EXTRA-PAIR/pair_momb.cpp @@ -34,8 +34,8 @@ using namespace LAMMPS_NS; static const char cite_momb[] = "Pair style momb: doi:10.1021/jp412098n\n\n" "@Article{pair_momb_2015,\n" - "title = {A Force Field for Describing the Polyvinylpyrrolidone-Mediated" - " Solution-Phase Synthesis of Shape-Selective {Ag} Nanoparticles},\n" + "title = {A Force Field for Describing the Polyvinylpyrrolidone-Mediated\n" + " Solution-Phase Synthesis of Shape-Selective {Ag} Nanoparticles},\n" "volume = {118},\n" "number = {6},\n" "url = {https://doi.org/10.1021/jp412098n},\n" diff --git a/src/MANIFOLD/fix_nve_manifold_rattle.cpp b/src/MANIFOLD/fix_nve_manifold_rattle.cpp index f9a728cb73..1ccf7c2e04 100644 --- a/src/MANIFOLD/fix_nve_manifold_rattle.cpp +++ b/src/MANIFOLD/fix_nve_manifold_rattle.cpp @@ -55,7 +55,7 @@ using namespace user_manifold; enum { CONST, EQUAL }; // For treating the variables. static const char* cite_fix_nve_manifold_rattle = - "fix nve/manifold/rattle command:\n\n" + "fix nve/manifold/rattle command: doi:10.1016/j.bpj.2016.02.017\n\n" "@article{paquay-2016,\n" " author = {Paquay, Stefan and Kusters, Remy},\n" " doi = {10.1016/j.bpj.2016.02.017},\n" diff --git a/src/MANIFOLD/fix_nvt_manifold_rattle.cpp b/src/MANIFOLD/fix_nvt_manifold_rattle.cpp index 6dbd211042..a7b2c5ed37 100644 --- a/src/MANIFOLD/fix_nvt_manifold_rattle.cpp +++ b/src/MANIFOLD/fix_nvt_manifold_rattle.cpp @@ -59,7 +59,7 @@ enum {NOBIAS,BIAS}; static const char* cite_fix_nvt_manifold_rattle = - "fix nvt/manifold/rattle command:\n\n" + "fix nvt/manifold/rattle command: doi:10.1016/j.bpj.2016.02.017\n\n" "@article{paquay-2016,\n" " author = {Paquay, Stefan and Kusters, Remy},\n" " doi = {10.1016/j.bpj.2016.02.017},\n" diff --git a/src/MANYBODY/pair_edip_multi.cpp b/src/MANYBODY/pair_edip_multi.cpp index 07b265ba48..f1b7200c25 100644 --- a/src/MANYBODY/pair_edip_multi.cpp +++ b/src/MANYBODY/pair_edip_multi.cpp @@ -46,14 +46,14 @@ static const char cite_pair_edip[] = "@article{cjiang2012\n" " author = {Jian, Chao and Morgan, Dane, and Szlufarska, Izabella},\n" " title = {Carbon Tri-Interstitial Defect: {A} Model for {D$_{\mathrm{II}}$} Center},\n" - " journal = {Phys.\ Rev.~B},\n" + " journal = {Phys.\\ Rev.~B},\n" " volume = {86},\n" " pages = {144118},\n" " year = {2012},\n" "}\n\n" "@article{lpizzagalli2010,\n" - " author = {G. Lucas, M. Bertolus, and L. Pizzagalli},\n" - " journal = {J.~Phys.\ Condens.\ Matter},\n" + " author = {G. Lucas and M. Bertolus and L. Pizzagalli},\n" + " journal = {J.~Phys.\\ Condens.\\ Matter},\n" " volume = {22},\n" " number = 3,\n" " pages = {035802},\n" diff --git a/src/MANYBODY/pair_local_density.cpp b/src/MANYBODY/pair_local_density.cpp index c9fe782eb8..789b1ddad9 100644 --- a/src/MANYBODY/pair_local_density.cpp +++ b/src/MANYBODY/pair_local_density.cpp @@ -37,7 +37,7 @@ using namespace LAMMPS_NS; #define MAXLINE 1024 static const char cite_pair_local_density[] = - "pair_style local/density command: doi:10.1063/1.4958629, doi:10.1021/acs.jpcb.7b12446\n\n" + "pair_style local/density command: doi:10.1063/1.4958629, doi:10.1021/acs.jpcb.7b12446\n\n" "@Article{Sanyal16,\n" " author = {T. Sanyal and M. Scott Shell},\n" " title = {Coarse-Grained Models Using Local-Density Potentials Optimized With the Relative Entropy: {A}pplication to Implicit Solvation},\n" diff --git a/src/PTM/compute_ptm_atom.cpp b/src/PTM/compute_ptm_atom.cpp index 5ad2c6c043..676144eb42 100644 --- a/src/PTM/compute_ptm_atom.cpp +++ b/src/PTM/compute_ptm_atom.cpp @@ -49,10 +49,10 @@ using namespace LAMMPS_NS; static const char cite_user_ptm_package[] = "PTM package: doi:10.1088/0965-0393/24/5/055007\n\n" "@Article{larsen2016ptm,\n" - " author={Larsen, Peter Mahler and Schmidt, S{\\o}ren and Schi{\\o}tz, " - "Jakob},\n" - " title={Robust Structural Identification via Polyhedral Template " - "matching},\n" + " author={Larsen, Peter Mahler and Schmidt, S{\\o}ren and\n" + " Schi{\\o}tz, Jakob},\n" + " title={Robust Structural Identification via Polyhedral Template\n" + " Matching},\n" " journal={Model.\\ Simulat.\\ Mater.\\ Sci.\\ Eng.},\n" " year={2016},\n" " number={5},\n" diff --git a/src/REACTION/fix_bond_react.cpp b/src/REACTION/fix_bond_react.cpp index 35cb239d62..14223eed5b 100644 --- a/src/REACTION/fix_bond_react.cpp +++ b/src/REACTION/fix_bond_react.cpp @@ -57,7 +57,7 @@ using namespace FixConst; using namespace MathConst; static const char cite_fix_bond_react[] = - "fix bond/react: reacter.org doi:10.1016/j.polymer.2017.09.038 doi:10.1021/acs.macromol.0c02012\n\n" + "fix bond/react: reacter.org doi:10.1016/j.polymer.2017.09.038, doi:10.1021/acs.macromol.0c02012\n\n" "@Article{Gissinger17,\n" " author = {J. R. Gissinger and B. D. Jensen and K. E. Wise},\n" " title = {Modeling Chemical Reactions in Classical Molecular Dynamics Simulations},\n" diff --git a/src/SPIN/min_spin_lbfgs.cpp b/src/SPIN/min_spin_lbfgs.cpp index 9497c13fea..9972af0a7a 100644 --- a/src/SPIN/min_spin_lbfgs.cpp +++ b/src/SPIN/min_spin_lbfgs.cpp @@ -43,7 +43,7 @@ using namespace LAMMPS_NS; using namespace MathConst; static const char cite_minstyle_spin_lbfgs[] = - "min_style spin/lbfgs command:\n\n" + "min_style spin/lbfgs command: doi:10.48550/arXiv.1904.02669\n\n" "@article{ivanov2019fast,\n" "title={Fast and Robust Algorithm for the Minimisation of the Energy of\n" " Spin Systems},\n" diff --git a/src/SPIN/neb_spin.cpp b/src/SPIN/neb_spin.cpp index eea9baecf8..381d1827b3 100644 --- a/src/SPIN/neb_spin.cpp +++ b/src/SPIN/neb_spin.cpp @@ -50,9 +50,9 @@ using namespace LAMMPS_NS; static const char cite_neb_spin[] = "neb/spin command: doi:10.1016/j.cpc.2015.07.001\n\n" "@article{bessarab2015method,\n" - "title={Method for finding mechanism and activation energy of " - " magnetic transitions, applied to skyrmion and antivortex " - " annihilation},\n" + "title={Method for Finding Mechanism and Activation Energy of\n" + " Magnetic Transitions, Applied to Skyrmion and Antivortex\n" + " Annihilation},\n" "author={Bessarab, P. F. and Uzdin, V. M. and J{\'o}nsson, H.},\n" "journal={Computer Physics Communications},\n" "volume={196},\n"