From 85fdf9eaba2b94430f2c207c833bac35b95df64c Mon Sep 17 00:00:00 2001
From: Axel Kohlmeyer <akohlmey@gmail.com>
Date: Fri, 2 Feb 2018 10:10:27 +0100
Subject: [PATCH] make links to papers unique across files
---
doc/src/fix_ti_spring.txt | 10 +++++-----
doc/src/pair_ufm.txt | 6 +++---
2 files changed, 8 insertions(+), 8 deletions(-)
diff --git a/doc/src/fix_ti_spring.txt b/doc/src/fix_ti_spring.txt
index afb1dcf8ff..191f9e7c6b 100644
--- a/doc/src/fix_ti_spring.txt
+++ b/doc/src/fix_ti_spring.txt
@@ -34,7 +34,7 @@ by performing a nonequilibrium thermodynamic integration between the
solid of interest and an Einstein crystal. A detailed explanation of
how to use this command and choose its parameters for optimal
performance and accuracy is given in the paper by
-"Freitas"_#Freitas. The paper also presents a short summary of the
+"Freitas"_#Freitas1. The paper also presents a short summary of the
theory of nonequilibrium thermodynamic integrations.
The thermodynamic integration procedure is performed by rescaling the
@@ -67,13 +67,13 @@ of lambda is kept equal to zero and the fix has no other effect on the
dynamics of the system.
The processes described above is known as nonequilibrium thermodynamic
-integration and is has been shown ("Freitas"_#Freitas) to present a
+integration and is has been shown ("Freitas"_#Freitas1) to present a
much superior efficiency when compared to standard equilibrium
methods. The reason why the switching it is made in both directions
(potential to Einstein crystal and back) is to eliminate the
dissipated heat due to the nonequilibrium process. Further details
about nonequilibrium thermodynamic integration and its implementation
-in LAMMPS is available in "Freitas"_#Freitas.
+in LAMMPS is available in "Freitas"_#Freitas1.
The {function} keyword allows the use of two different lambda
paths. Option {1} results in a constant rate of change of lambda with
@@ -94,7 +94,7 @@ thermodynamic integration. The use of option {2} is recommended since
it results in better accuracy and less dissipation without any
increase in computational resources cost.
-NOTE: As described in "Freitas"_#Freitas, it is important to keep the
+NOTE: As described in "Freitas"_#Freitas1, it is important to keep the
center-of-mass fixed during the thermodynamic integration. A nonzero
total velocity will result in divergences during the integration due
to the fact that the atoms are 'attached' to their equilibrium
@@ -156,7 +156,7 @@ The keyword default is function = 1.
:line
-:link(Freitas)
+:link(Freitas1)
[(Freitas)] Freitas, Asta, and de Koning, Computational Materials
Science, 112, 333 (2016).
diff --git a/doc/src/pair_ufm.txt b/doc/src/pair_ufm.txt
index 2be35b0d4b..88a22864cc 100644
--- a/doc/src/pair_ufm.txt
+++ b/doc/src/pair_ufm.txt
@@ -62,7 +62,7 @@ of a run:
variable prefactor equal ramp(10,100)
fix 1 all adapt 1 pair ufm epsilon * * v_prefactor :pre
-NOTE: The thermodynamic integration procedure can be performed with this potential using "fix adapt"_fix_adapt.html. This command will rescale the force on each atom by varying a scale variable, which always starts with value 1.0. The syntax is the same described above, however, changing epsilon to scale. A detailed explanation of how to use this command and perform nonequilibrium thermodynamic integration in LAMMPS is given in the paper by "(Freitas)"_#Freitas.
+NOTE: The thermodynamic integration procedure can be performed with this potential using "fix adapt"_fix_adapt.html. This command will rescale the force on each atom by varying a scale variable, which always starts with value 1.0. The syntax is the same described above, however, changing epsilon to scale. A detailed explanation of how to use this command and perform nonequilibrium thermodynamic integration in LAMMPS is given in the paper by "(Freitas)"_#Freitas2.
:line
@@ -131,5 +131,5 @@ This pair style can only be used via the {pair} keyword of the
[(Paula Leite2016)] Paula Leite , Freitas, Azevedo, and de Koning, J Chem Phys, 126,
044509 (2016).
-:link(Freitas)
-[(Freitas)] Freitas, Asta, and de Koning, Computational Materials Science, 112, 333 (2016).
\ No newline at end of file
+:link(Freitas2)
+[(Freitas)] Freitas, Asta, and de Koning, Computational Materials Science, 112, 333 (2016).
--
GitLab