Loading doc/src/fix_nve_dot.txt +4 −2 Original line number Diff line number Diff line Loading @@ -36,8 +36,8 @@ The command is equivalent to the "fix nve"_fix_nve.html. The particles are always considered to have a finite size. An example input file can be found in /examples/USER/cgdna/examples/duplex1/. A technical report with more information on this integrator can be found "here"_PDF/USER-CGDNA-overview.pdf. Further details of the implementation and stability of the integrator are contained in "(Henrich)"_#Henrich3. The preprint version of the article can be found "here"_PDF/USER-CGDNA.pdf. :line Loading @@ -59,3 +59,5 @@ See the "Build package"_Build_package.html doc page for more info. [(Davidchack)] R.L Davidchack, T.E. Ouldridge, and M.V. Tretyakov. J. Chem. Phys. 142, 144114 (2015). :link(Miller1) [(Miller)] T. F. Miller III, M. Eleftheriou, P. Pattnaik, A. Ndirango, G. J. Martyna, J. Chem. Phys., 116, 8649-8659 (2002). :link(Henrich3) [(Henrich)] O. Henrich, Y. A. Gutierrez-Fosado, T. Curk, T. E. Ouldridge, Eur. Phys. J. E 41, 57 (2018). doc/src/fix_nve_dotc_langevin.txt +4 −2 Original line number Diff line number Diff line Loading @@ -114,8 +114,8 @@ The scale factor after the {angmom} keyword gives the ratio of the rotational to the translational friction coefficient. An example input file can be found in /examples/USER/cgdna/examples/duplex2/. A technical report with more information on this integrator can be found "here"_PDF/USER-CGDNA-overview.pdf. Further details of the implementation and stability of the integrators are contained in "(Henrich)"_#Henrich4. The preprint version of the article can be found "here"_PDF/USER-CGDNA.pdf. :line Loading @@ -139,3 +139,5 @@ See the "Build package"_Build_package.html doc page for more info. [(Miller)] T. F. Miller III, M. Eleftheriou, P. Pattnaik, A. Ndirango, G. J. Martyna, J. Chem. Phys., 116, 8649-8659 (2002). :link(Dunweg3) [(Dunweg)] B. Dunweg, W. Paul, Int. J. Mod. Phys. C, 2, 817-27 (1991). :link(Henrich4) [(Henrich)] O. Henrich, Y. A. Gutierrez-Fosado, T. Curk, T. E. Ouldridge, Eur. Phys. J. E 41, 57 (2018). Loading
doc/src/fix_nve_dot.txt +4 −2 Original line number Diff line number Diff line Loading @@ -36,8 +36,8 @@ The command is equivalent to the "fix nve"_fix_nve.html. The particles are always considered to have a finite size. An example input file can be found in /examples/USER/cgdna/examples/duplex1/. A technical report with more information on this integrator can be found "here"_PDF/USER-CGDNA-overview.pdf. Further details of the implementation and stability of the integrator are contained in "(Henrich)"_#Henrich3. The preprint version of the article can be found "here"_PDF/USER-CGDNA.pdf. :line Loading @@ -59,3 +59,5 @@ See the "Build package"_Build_package.html doc page for more info. [(Davidchack)] R.L Davidchack, T.E. Ouldridge, and M.V. Tretyakov. J. Chem. Phys. 142, 144114 (2015). :link(Miller1) [(Miller)] T. F. Miller III, M. Eleftheriou, P. Pattnaik, A. Ndirango, G. J. Martyna, J. Chem. Phys., 116, 8649-8659 (2002). :link(Henrich3) [(Henrich)] O. Henrich, Y. A. Gutierrez-Fosado, T. Curk, T. E. Ouldridge, Eur. Phys. J. E 41, 57 (2018).
doc/src/fix_nve_dotc_langevin.txt +4 −2 Original line number Diff line number Diff line Loading @@ -114,8 +114,8 @@ The scale factor after the {angmom} keyword gives the ratio of the rotational to the translational friction coefficient. An example input file can be found in /examples/USER/cgdna/examples/duplex2/. A technical report with more information on this integrator can be found "here"_PDF/USER-CGDNA-overview.pdf. Further details of the implementation and stability of the integrators are contained in "(Henrich)"_#Henrich4. The preprint version of the article can be found "here"_PDF/USER-CGDNA.pdf. :line Loading @@ -139,3 +139,5 @@ See the "Build package"_Build_package.html doc page for more info. [(Miller)] T. F. Miller III, M. Eleftheriou, P. Pattnaik, A. Ndirango, G. J. Martyna, J. Chem. Phys., 116, 8649-8659 (2002). :link(Dunweg3) [(Dunweg)] B. Dunweg, W. Paul, Int. J. Mod. Phys. C, 2, 817-27 (1991). :link(Henrich4) [(Henrich)] O. Henrich, Y. A. Gutierrez-Fosado, T. Curk, T. E. Ouldridge, Eur. Phys. J. E 41, 57 (2018).
