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Update DOI resolver

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https://www.doi.org/doi_handbook/2_Numbering.html#htmlencoding
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Eisuke Kawashima
2020-03-12 16:51:53 +09:00
parent 33996d9bac
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27 changed files with 43 additions and 43 deletions
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2
examples/HEAT/README
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@ -6,7 +6,7 @@ All input scripts are part of the supplementary (open access) material
supporting the publication of Wirnsberger et al. [J. Chem. Phys. 143,
124104 (2015)] and allow one to reproduce the key results reported in
that paper. The full article is available for download under
http://dx.doi.org/10.1063/1.4931597 or http://arxiv.org/pdf/1507.07081
https://doi.org/10.1063/1.4931597 or http://arxiv.org/pdf/1507.07081
and the supplementary material is available under
https://www.repository.cam.ac.uk/handle/1810/250539.

4
examples/USER/colvars/log.27Nov18.peptide-colvars.g++.1
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@ -101,7 +101,7 @@ colvars: Creating proxy instance
colvars: ----------------------------------------------------------------------
colvars: Initializing the collective variables module, version 2018-11-16.
colvars: Please cite Fiorin et al, Mol Phys 2013:
colvars: http://dx.doi.org/10.1080/00268976.2013.813594
colvars: https://doi.org/10.1080/00268976.2013.813594
colvars: in any publication based on this calculation.
colvars: SMP parallelism is available.
colvars: Using LAMMPS interface, version 2018-08-29.
@ -405,7 +405,7 @@ colvars: Creating proxy instance
colvars: ----------------------------------------------------------------------
colvars: Initializing the collective variables module, version 2018-11-16.
colvars: Please cite Fiorin et al, Mol Phys 2013:
colvars: http://dx.doi.org/10.1080/00268976.2013.813594
colvars: https://doi.org/10.1080/00268976.2013.813594
colvars: in any publication based on this calculation.
colvars: SMP parallelism is available.
colvars: Using LAMMPS interface, version 2018-08-29.

4
examples/USER/colvars/log.27Nov18.peptide-colvars.g++.4
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@ -101,7 +101,7 @@ colvars: Creating proxy instance
colvars: ----------------------------------------------------------------------
colvars: Initializing the collective variables module, version 2018-11-16.
colvars: Please cite Fiorin et al, Mol Phys 2013:
colvars: http://dx.doi.org/10.1080/00268976.2013.813594
colvars: https://doi.org/10.1080/00268976.2013.813594
colvars: in any publication based on this calculation.
colvars: SMP parallelism is available.
colvars: Using LAMMPS interface, version 2018-08-29.
@ -405,7 +405,7 @@ colvars: Creating proxy instance
colvars: ----------------------------------------------------------------------
colvars: Initializing the collective variables module, version 2018-11-16.
colvars: Please cite Fiorin et al, Mol Phys 2013:
colvars: http://dx.doi.org/10.1080/00268976.2013.813594
colvars: https://doi.org/10.1080/00268976.2013.813594
colvars: in any publication based on this calculation.
colvars: SMP parallelism is available.
colvars: Using LAMMPS interface, version 2018-08-29.

2
examples/USER/colvars/log.27Nov18.peptide-colvars2.g++.1
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@ -100,7 +100,7 @@ colvars: Creating proxy instance
colvars: ----------------------------------------------------------------------
colvars: Initializing the collective variables module, version 2018-11-16.
colvars: Please cite Fiorin et al, Mol Phys 2013:
colvars: http://dx.doi.org/10.1080/00268976.2013.813594
colvars: https://doi.org/10.1080/00268976.2013.813594
colvars: in any publication based on this calculation.
colvars: SMP parallelism is available.
colvars: Using LAMMPS interface, version 2018-08-29.

2
examples/USER/colvars/log.27Nov18.peptide-colvars2.g++.4
View File

@ -100,7 +100,7 @@ colvars: Creating proxy instance
colvars: ----------------------------------------------------------------------
colvars: Initializing the collective variables module, version 2018-11-16.
colvars: Please cite Fiorin et al, Mol Phys 2013:
colvars: http://dx.doi.org/10.1080/00268976.2013.813594
colvars: https://doi.org/10.1080/00268976.2013.813594
colvars: in any publication based on this calculation.
colvars: SMP parallelism is available.
colvars: Using LAMMPS interface, version 2018-08-29.

6
examples/USER/misc/rhok/README.md
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@ -19,7 +19,7 @@ For future reference we note that the structure factor S(k) is given by the vari
It is recommended to get familiar with the interface pinning method by reading:
[Ulf R. Pedersen, JCP 139, 104102 (2013)](http://dx.doi.org/10.1063/1.4818747)
[Ulf R. Pedersen, JCP 139, 104102 (2013)](https://doi.org/10.1063/1.4818747)
A detailed bibliography is provided at
@ -63,8 +63,8 @@ can be used to show this. The present directory contains the input files that we
the value fluctuates around the anchor point (a) -- showing that this is indeed a coexistence
state point.
The reference [JCP 139, 104102 (2013)](http://dx.doi.org/10.1063/1.4818747) gives details on using the method to find coexistence state points,
and the reference [JCP 142, 044104 (2015)](http://dx.doi.org/10.1063/1.4818747) show how the crystal growth rate can be computed from fluctuations.
The reference [JCP 139, 104102 (2013)](https://doi.org/10.1063/1.4818747) gives details on using the method to find coexistence state points,
and the reference [JCP 142, 044104 (2015)](https://doi.org/10.1063/1.4818747) show how the crystal growth rate can be computed from fluctuations.
That method have been experienced to be most effective in the slightly super-heated regime above the melting temperature.
## Contact

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examples/USER/misc/ti/in.ti_spring
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@ -2,7 +2,7 @@
#
# Description: nonequilibrium thermodynamic integration. Further details in:
# R. Freitas, M. Asta, and M. de Koning, Computational Materials Science, (2016)
# http://dx.doi.org/10.1016/j.commatsci.2015.10.050
# https://doi.org/10.1016/j.commatsci.2015.10.050
#--------------------------- System setup -------------------------------------#