diff --git a/doc/src/accelerate_intel.txt b/doc/src/accelerate_intel.txt index f7f655a639bf677575b1e03f19b5e9326b2cb2c0..581c440bc31510d524f323a7681e47740b4f58a9 100644 --- a/doc/src/accelerate_intel.txt +++ b/doc/src/accelerate_intel.txt @@ -464,7 +464,7 @@ supported. [References:] -Brown, W.M., Carrillo, J.-M.Y., Mishra, B., Gavhane, N., Thakker, F.M., De Kraker, A.R., Yamada, M., Ang, J.A., Plimpton, S.J., “Optimizing Classical Molecular Dynamics in LAMMPS,†in Intel Xeon Phi Processor High Performance Programming: Knights Landing Edition, J. Jeffers, J. Reinders, A. Sodani, Eds. Morgan Kaufmann. :ulb,l +Brown, W.M., Carrillo, J.-M.Y., Mishra, B., Gavhane, N., Thakker, F.M., De Kraker, A.R., Yamada, M., Ang, J.A., Plimpton, S.J., "Optimizing Classical Molecular Dynamics in LAMMPS," in Intel Xeon Phi Processor High Performance Programming: Knights Landing Edition, J. Jeffers, J. Reinders, A. Sodani, Eds. Morgan Kaufmann. :ulb,l Brown, W. M., Semin, A., Hebenstreit, M., Khvostov, S., Raman, K., Plimpton, S.J. Increasing Molecular Dynamics Simulation Rates with an 8-Fold Increase in Electrical Power Efficiency. 2016 International Conference for High Performance Computing. In press. :l diff --git a/doc/src/pair_kolmogorov_crespi_z.txt b/doc/src/pair_kolmogorov_crespi_z.txt index a7bd917caaa5935bb602cbebaf7115d5f03d9137..0879dc34d02a87fe9f928b23fed62cbf0a1eeade 100644 --- a/doc/src/pair_kolmogorov_crespi_z.txt +++ b/doc/src/pair_kolmogorov_crespi_z.txt @@ -67,6 +67,6 @@ LAMMPS"_Section_start.html#start_3 section for more info. :link(KC05) [(KC05)] A. N. Kolmogorov, V. H. Crespi, Phys. Rev. B 71, 235415 (2005) -:link(vanWijk) -[(vanWijk)] M. M. van Wijk, A. Schuring, M. I. Katsnelson, and A. Fasolino, +:link(vanWijk) +[(vanWijk)] M. M. van Wijk, A. Schuring, M. I. Katsnelson, and A. Fasolino, Physical Review Letters, 113, 135504 (2014) diff --git a/doc/src/pair_oxdna.txt b/doc/src/pair_oxdna.txt index ba2a3e4b013125cb63a1712461fe1f92b9d5ab32..9aeee3037ad8ed51585037a22a4d2087c24199a5 100644 --- a/doc/src/pair_oxdna.txt +++ b/doc/src/pair_oxdna.txt @@ -50,7 +50,7 @@ NOTE: These pair styles have to be used together with the related oxDNA bond sty "bond_style oxdna/fene"_bond_oxdna.html). The coefficients in the above example have to be kept fixed and cannot be changed without reparametrizing the entire model. -Example input and data files can be found in examples/USER/cgdna/examples/duplex1/ and /duplex2/. +Example input and data files can be found in examples/USER/cgdna/examples/duplex1/ and /duplex2/. A simple python setup tool which creates single straight or helical DNA strands, DNA duplexes or arrays of DNA duplexes can be found in examples/USER/cgdna/util/. A technical report with more information on the model, the structure of the input file,