[cig-commits] r14176 - doc/snac
echoi at geodynamics.org
echoi at geodynamics.org
Sun Mar 1 08:00:58 PST 2009
Author: echoi
Date: 2009-03-01 08:00:58 -0800 (Sun, 01 Mar 2009)
New Revision: 14176
Modified:
doc/snac/snac.lyx
Log:
Added a paragraph regarding the "artificial waves" due to the dynamic nature of SNAC.
Modified: doc/snac/snac.lyx
===================================================================
--- doc/snac/snac.lyx 2009-03-01 05:46:02 UTC (rev 14175)
+++ doc/snac/snac.lyx 2009-03-01 16:00:58 UTC (rev 14176)
@@ -1,5 +1,5 @@
-#LyX 1.5.1 created this file. For more info see http://www.lyx.org/
-\lyxformat 276
+#LyX 1.6.0 created this file. For more info see http://www.lyx.org/
+\lyxformat 345
\begin_document
\begin_header
\textclass book
@@ -11,6 +11,7 @@
\raggedbottom
\end_preamble
+\use_default_options false
\language english
\inputencoding auto
\font_roman default
@@ -21,9 +22,11 @@
\font_osf false
\font_sf_scale 100
\font_tt_scale 100
+
\graphics default
\paperfontsize default
\spacing single
+\use_hyperref false
\papersize default
\use_geometry true
\use_amsmath 1
@@ -60,12 +63,11 @@
sideways false
status open
-\begin_layout Standard
+\begin_layout Plain Layout
\noindent
\align center
\begin_inset Graphics
filename figures/snac_cover.pdf
- display color
width 75page%
\end_inset
@@ -84,7 +86,7 @@
\begin_inset ERT
status collapsed
-\begin_layout Standard
+\begin_layout Plain Layout
\backslash
@@ -102,7 +104,9 @@
\begin_layout Author
© California Institute of Technology
-\newline
+\begin_inset Newline newline
+\end_inset
+
Version 1.0.0
\end_layout
@@ -111,7 +115,7 @@
\begin_inset ERT
status collapsed
-\begin_layout Standard
+\begin_layout Plain Layout
\backslash
@@ -131,33 +135,50 @@
Pictured is the plastic strain distribution over a deformed block of elasto-plas
tic material.
While similar to the example problem in Section
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "sec:Complete-Example-XML"
\end_inset
-, the domain is larger (100\InsetSpace ~
+, the domain is larger (100
+\begin_inset space ~
+\end_inset
+
\begin_inset Formula $\times$
\end_inset
-\InsetSpace ~
-20\InsetSpace ~
+\begin_inset space ~
+\end_inset
+
+20
+\begin_inset space ~
+\end_inset
+
+
\begin_inset Formula $\times$
\end_inset
-\InsetSpace ~
+
+\begin_inset space ~
+\end_inset
+
100 km) and a distributed loading is applied on the bottom surface to simulate
an oblique rifting.
The warped surface on top of the domain represents 10 times exaggerated
surface topography, and the relief between the highest and the lowest point
- is about 1\InsetSpace ~
+ is about 1
+\begin_inset space ~
+\end_inset
+
km.
\end_layout
\begin_layout Standard
-\begin_inset LatexCommand tableofcontents
+\begin_inset CommandInset toc
+LatexCommand tableofcontents
\end_inset
@@ -194,26 +215,40 @@
\end_layout
\begin_layout Standard
-The style of this publication is based on the
-\begin_inset LatexCommand htmlurl
-name "Apple Publications Style Guide"
-target "developer.apple.com/documentation/UserExperience/Conceptual/APStyleGuide/AppleStyleGuide2003.pdf"
+The style of this publication is based on the Apple Publications Style Guide
+
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+developer.apple.com/documentation/UserExperience/Conceptual/APStyleGuide/AppleStyl
+eGuide2003.pdf
+\end_layout
+
\end_inset
-, as recommended by
-\begin_inset LatexCommand htmlurl
-name "Python.org"
-target "www.python.org"
+, as recommended by Python.org
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+www.python.org
+\end_layout
+
\end_inset
.
- The documentation was produced using
-\begin_inset LatexCommand htmlurl
-name "LyX"
-target "www.lyx.org"
+ The documentation was produced using LyX
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+www.lyx.org
+\end_layout
+
\end_inset
to facilitate the transformation of files from one format to another.
@@ -223,11 +258,16 @@
\end_layout
\begin_layout Standard
-Errors and bug fixes in this manual should be directed to the
-\begin_inset LatexCommand url
-name "CIG Long-Term Tectonics Mailing List"
-target "cig-long at geodynamics.org"
+Errors and bug fixes in this manual should be directed to the CIG Long-Term
+ Tectonics Mailing List
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+cig-long at geodynamics.org
+\end_layout
+
\end_inset
.
@@ -276,12 +316,17 @@
Earth Planet.
Inter.,
\emph default
- accepted
+ 171, 374-386,
\emph on
-\begin_inset LatexCommand htmlurl
-target "dx.doi.org/10.1016/j.pepi.2008.08.010"
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+dx.doi.org/10.1016/j.pepi.2008.08.010
+\end_layout
+
\end_inset
.
@@ -290,11 +335,15 @@
\begin_layout Standard
The developers also request that in your oral presentations and in your
paper acknowledgements that you indicate your use of this code, the authors
- of the code, and
-\begin_inset LatexCommand htmlurl
-name "CIG"
-target "geodynamics.org"
+ of the code, and CIG
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+geodynamics.org
+\end_layout
+
\end_inset
.
@@ -305,18 +354,28 @@
\end_layout
\begin_layout Standard
-SNAC development is funded by the
-\begin_inset LatexCommand htmlurl
-name "U.S. Dept. of Energy's Advanced Simulation and Computing program"
-target "www.sandia.gov/NNSA/ASC"
+SNAC development is funded by the U.S.
+ Dept.
+ of Energy's Advanced Simulation and Computing program
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+www.sandia.gov/NNSA/ASC
+\end_layout
+
\end_inset
- and the
-\begin_inset LatexCommand htmlurl
-name "National Science Foundation's"
-target "www.nsf.gov"
+ and the National Science Foundation's
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+www.nsf.gov
+\end_layout
+
\end_inset
Information Technology Research (ITR) program (grant #0205653).
@@ -341,7 +400,8 @@
finite difference code for modeling a finitely deforming elasto-visco-plastic
solid in 3D, released under the GNU General Public License (see Chapter
-\begin_inset LatexCommand vref
+\begin_inset CommandInset ref
+LatexCommand vref
reference "cha:License"
\end_inset
@@ -361,7 +421,8 @@
for symmetric response.
To avoid the over-stiff response of tetrahedrons in the incompressible
limit, mixed discretization is applied
-\begin_inset LatexCommand cite
+\begin_inset CommandInset citation
+LatexCommand cite
key "MartCund1982"
\end_inset
@@ -438,29 +499,34 @@
A 3D domain is discretized into hexahedral elements, each of which is filled
with two sets of 5 tetrahedra (Fig.
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "fig:snac_mesh"
\end_inset
a).
In this mesh hierarchy, called the mixed discretization
-\begin_inset LatexCommand cite
+\begin_inset CommandInset citation
+LatexCommand cite
key "MartCund1982"
\end_inset
-, hexahedral elements are used only as an averaging unit for volumetric
+, hexahedral elements are used mostly as an averaging unit for volumetric
strain.
- The averaging is enforced at all times, for incompressible viscoelastic
- or plastic constitutive laws.
+ The averaging is enforced at all times although needed only for incompressible
+ viscoelastic or plastic constitutive laws.
+ This is a conservative choice and does influence the overall performance
+ of SNAC.
The use of two equivalent sets of tetrahedra is required to ensure a symmetric
response.
For a given loading, responses of one set of tetrahedra can be different
from those of the other set because of the differently orientated faces
of tetrahedra in each set, e.g.
-\begin_inset LatexCommand cite
+\begin_inset CommandInset citation
+LatexCommand cite
key "Zien_etal1995"
\end_inset
@@ -474,7 +540,7 @@
sideways false
status open
-\begin_layout Standard
+\begin_layout Plain Layout
\noindent
\align center
\begin_inset Graphics
@@ -486,11 +552,12 @@
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\begin_inset Caption
-\begin_layout Standard
-\begin_inset LatexCommand label
+\begin_layout Plain Layout
+\begin_inset CommandInset label
+LatexCommand label
name "fig:snac_mesh"
\end_inset
@@ -533,7 +600,8 @@
\begin_layout Standard
The approximation of partial derivatives with respect to spatial variables
follows the integral definitions, e.g.,
-\begin_inset LatexCommand cite
+\begin_inset CommandInset citation
+LatexCommand cite
key "Wilkins1964"
\end_inset
@@ -604,7 +672,8 @@
in Eq.
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "eq:def_fi"
\end_inset
@@ -639,7 +708,8 @@
as one of its apexes (Fig.
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "fig:snac_mesh"
\end_inset
@@ -676,7 +746,8 @@
\begin_layout Standard
We can convert the differential equation for momentum balance (Eq.
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "eq:Momentum balance for continuum"
\end_inset
@@ -762,7 +833,8 @@
Any applied traction boundary conditions should be explicitly computed
and added on the right hand side of (Eq.
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "eq:momentumdiscrete"
\end_inset
@@ -774,16 +846,21 @@
is not the actual inertial mass but an adjusted one to satisfy a local
stability criterion discussed in Section
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "sub:mass-scaling"
\end_inset
.
The correspondence between an apex and a face for the traction calculation
- is determined as in the derivation of the expression, (Eq.\InsetSpace ~
+ is determined as in the derivation of the expression, (Eq.
+\begin_inset space ~
+\end_inset
-\begin_inset LatexCommand ref
+
+\begin_inset CommandInset ref
+LatexCommand ref
reference "eq:formula_fi"
\end_inset
@@ -795,7 +872,8 @@
in the traction term is inherited from Eq.
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "eq:formula_fi"
\end_inset
@@ -825,7 +903,8 @@
We seek static or quasi-static solutions through a dynamic relaxation method.
Instead of adding a usual velocity-dependent friction term, we adopt a
local non-viscous damping scheme
-\begin_inset LatexCommand cite
+\begin_inset CommandInset citation
+LatexCommand cite
key "Cundall_1987"
\end_inset
@@ -854,7 +933,8 @@
-th component of the residual force vector (the right hand side of Eq.
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "eq:momentumdiscrete"
\end_inset
@@ -893,13 +973,32 @@
\end_inset
- Damping is irrelevant to the update of temperature field, but the same
- forward Euler method is used.
+Damping is irrelevant to the update of temperature field, but the same forward
+ Euler method is used.
\end_layout
+\begin_layout Standard
+\noindent
+There are couple of Snac-specific numerical artefacts.
+ First, as in the case of a under-damped oscillator, Snac's solutions will
+ exhibit artificial oscillations, but these are only transient and does
+ not affect the static equilibrium.
+ Since the state Another notable artefact is the randomness in the magnitude
+ of residual forces.
+ Suppose the magnitude of assembled residual force is very small compared
+ to those of the contributing internal and external forces.
+ It means that many significant figures in floating-point numbers representing
+ the contributing forces are lost during the assemblage.
+ The residual force ends up with having random numbers in the floating number
+ corresponding to it.
+ So, this is related to a fundamental issue of representing real numbers
+ with floating point numbers.
+\end_layout
+
\begin_layout Subsection
Mass Scaling for Numerical Stability
-\begin_inset LatexCommand label
+\begin_inset CommandInset label
+LatexCommand label
name "sub:mass-scaling"
\end_inset
@@ -951,7 +1050,8 @@
Instead, through an analogy of continuum to an infinite mass-spring system,
we use a criterion that does not explicitly include length scale and P
wave velocity; see Chapter 9 in Bathe
-\begin_inset LatexCommand cite
+\begin_inset CommandInset citation
+LatexCommand cite
key "Bathe_1996"
\end_inset
@@ -999,16 +1099,21 @@
\begin_inset Formula $\Delta t$
\end_inset
-, the nodal mass is adjusted according to Eq.\InsetSpace ~
+, the nodal mass is adjusted according to Eq.
+\begin_inset space ~
+\end_inset
-\begin_inset LatexCommand ref
+
+\begin_inset CommandInset ref
+LatexCommand ref
reference "eq:critmass"
\end_inset
to automatically satisfy the stability criterion, Eq.
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "eq:dtcrit"
\end_inset
@@ -1036,7 +1141,8 @@
account.
By substituting the approximation (Eq.
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "eq:formula_fi"
\end_inset
@@ -1082,7 +1188,8 @@
\begin_layout Standard
SNAC uses a general elasto-visco-plastic rheological model to update the
Cauchy stress tensor (e.g.,
-\begin_inset LatexCommand cite
+\begin_inset CommandInset citation
+LatexCommand cite
key "Albe_etal2000"
\end_inset
@@ -1090,7 +1197,8 @@
).
First, the initial guess of stress is acquired by the Maxwell viscoelastic
constitutive law
-\begin_inset LatexCommand cite
+\begin_inset CommandInset citation
+LatexCommand cite
key "Poli_etal1993a"
\end_inset
@@ -1098,7 +1206,8 @@
.
If this initial guess exceeds a given yield stress, it is projected onto
the yield surface using a return mapping method
-\begin_inset LatexCommand cite
+\begin_inset CommandInset citation
+LatexCommand cite
key "SimoHugh2004"
\end_inset
@@ -1146,7 +1255,8 @@
\end_inset
)
-\begin_inset LatexCommand cite
+\begin_inset CommandInset citation
+LatexCommand cite
key "RudnRice1975"
\end_inset
@@ -1273,7 +1383,8 @@
\end_inset
onto the yield surface using a return-mapping algorithm
-\begin_inset LatexCommand cite
+\begin_inset CommandInset citation
+LatexCommand cite
key "SimoHugh2004"
\end_inset
@@ -1431,7 +1542,8 @@
which provides stress correction.
More details of calculations for the Mohr-Coulomb model are available in
Chapter
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "cha:Benchmark-Problems"
\end_inset
@@ -1463,15 +1575,20 @@
quadrature locations.
Such a transfer is proven to be variationally consistent and also preserves
nonlinear internal constraints as in the case of plasticity
-\begin_inset LatexCommand cite
+\begin_inset CommandInset citation
+LatexCommand cite
key "OrtiQuig1991"
\end_inset
.
- Fig.\InsetSpace ~
+ Fig.
+\begin_inset space ~
+\end_inset
-\begin_inset LatexCommand ref
+
+\begin_inset CommandInset ref
+LatexCommand ref
reference "fig:Remeshing.-Lagrangian-mesh"
\end_inset
@@ -1499,7 +1616,8 @@
states and properties of material for the unmappable regions.
Finally, note that Fig.
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "fig:Remeshing.-Lagrangian-mesh"
\end_inset
@@ -1520,7 +1638,7 @@
sideways false
status open
-\begin_layout Standard
+\begin_layout Plain Layout
\noindent
\align center
\begin_inset Graphics
@@ -1532,11 +1650,12 @@
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\begin_inset Caption
-\begin_layout Standard
-\begin_inset LatexCommand label
+\begin_layout Plain Layout
+\begin_inset CommandInset label
+LatexCommand label
name "fig:Remeshing.-Lagrangian-mesh"
\end_inset
@@ -1563,7 +1682,8 @@
\begin_layout Standard
SNAC follows StGermain's architecture (see Section
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "sec:StGermain"
\end_inset
@@ -1696,7 +1816,8 @@
\begin_layout Standard
Fig.
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "fig:EP_hierarchy"
\end_inset
@@ -1716,7 +1837,7 @@
sideways false
status open
-\begin_layout Standard
+\begin_layout Plain Layout
\begin_inset Graphics
filename figures/EP_hierarchy_StG.pdf
lyxscale 40
@@ -1726,8 +1847,9 @@
\begin_inset Caption
-\begin_layout Standard
-\begin_inset LatexCommand label
+\begin_layout Plain Layout
+\begin_inset CommandInset label
+LatexCommand label
name "fig:EP_hierarchy"
\end_inset
@@ -1749,7 +1871,8 @@
\end_layout
\begin_layout Section
-\begin_inset LatexCommand label
+\begin_inset CommandInset label
+LatexCommand label
name "sec:StGermain"
\end_inset
@@ -1787,7 +1910,8 @@
StGermain provides a suite of libraries needed by general physical modeling
software such as flow control, domain discretization, and initial/boundary
condition management
-\begin_inset LatexCommand cite
+\begin_inset CommandInset citation
+LatexCommand cite
key "Quen_etal2005"
\end_inset
@@ -1821,11 +1945,15 @@
\family typewriter
tar
\family default
- file) available at the
-\begin_inset LatexCommand htmlurl
-name "SNAC web page"
-target "geodynamics.org/cig/software/packages/long/snac"
+ file) available at the SNAC web page
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+geodynamics.org/cig/software/packages/long/snac
+\end_layout
+
\end_inset
.
@@ -1839,20 +1967,28 @@
\end_layout
\begin_layout Standard
-For help, send e-mail to the
-\begin_inset LatexCommand htmlurl
-name "CIG Long-term Tectonics Mailing List"
-target "cig-long at geodynamics.org"
+For help, send e-mail to the CIG Long-term Tectonics Mailing List
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+cig-long at geodynamics.org
+\end_layout
+
\end_inset
.
You can subscribe to the Mailing List and view archived discussion at the
-
-\begin_inset LatexCommand htmlurl
-name "Geodynamics Mail Lists web page"
-target "geodynamics.org/cig/lists"
+ Geodynamics Mail Lists web page
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+geodynamics.org/cig/lists
+\end_layout
+
\end_inset
.
@@ -1923,11 +2059,16 @@
\begin_layout Standard
The Mac OS X version of GCC is included in a software development suite
called Xcode.
- Xcode is available as a free download at the
-\begin_inset LatexCommand htmlurl
-name "Apple Developer Connection"
-target "developer.apple.com"
+ Xcode is available as a free download at the Apple Developer Connection
+
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+developer.apple.com
+\end_layout
+
\end_inset
.
@@ -1973,11 +2114,15 @@
\begin_layout Standard
StGermain requires an implementation of the MPI-1 standard for parallel
message passing, even if you only intend to run the code in serial.
- A popular choice is
-\begin_inset LatexCommand htmlurl
-name "MPICH"
-target "www-unix.mcs.anl.gov/mpi/mpich"
+ A popular choice is MPICH
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+www-unix.mcs.anl.gov/mpi/mpich
+\end_layout
+
\end_inset
.
@@ -1991,18 +2136,27 @@
\begin_layout Standard
Linux users may have a prebuilt MPI package available for their distribution.
- On Mac OS X, the Fink package manager offers a prepackaged version of
-\begin_inset LatexCommand htmlurl
-name "LAM/MPI"
-target "www.lam-mpi.org"
+ On Mac OS X, the Fink package manager offers a prepackaged version of LAM/MPI
+
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+www.lam-mpi.org
+\end_layout
+
\end_inset
-; so if you have
-\begin_inset LatexCommand htmlurl
-name "Fink"
-target "fink.sourceforge.net"
+; so if you have Fink
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+fink.sourceforge.net
+\end_layout
+
\end_inset
installed, simply enter the following command from a Terminal window to
@@ -2125,11 +2279,15 @@
The Libxml2 library and toolkit are required for SNAC to handle the input
files.
Although already included in most of the recent Linux systems, it can be
- obtained from
-\begin_inset LatexCommand htmlurl
-name "The XML C parser and toolkit of Gnome"
-target "xmlsoft.org"
+ obtained from The XML C parser and toolkit of Gnome
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+xmlsoft.org
+\end_layout
+
\end_inset
and installed manually.
@@ -2215,11 +2373,15 @@
\end_layout
\begin_layout Standard
-Download SNAC from the
-\begin_inset LatexCommand htmlurl
-name "SNAC web page"
-target "geodynamics.org/cig/software/packages/long/snac"
+Download SNAC from the SNAC web page
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+geodynamics.org/cig/software/packages/long/snac
+\end_layout
+
\end_inset
.
@@ -2258,9 +2420,13 @@
) to the directory containing the SNAC source
\family typewriter
.
-\newline
+\begin_inset Newline newline
+\end_inset
-\newline
+
+\begin_inset Newline newline
+\end_inset
+
$ cd SNAC-1.0.0
\end_layout
@@ -2272,9 +2438,13 @@
to configure the package for your system
\family typewriter
.
-\newline
+\begin_inset Newline newline
+\end_inset
-\newline
+
+\begin_inset Newline newline
+\end_inset
+
$ ./configure.sh
\end_layout
@@ -2286,9 +2456,13 @@
to build the package.
\family typewriter
-\newline
+\begin_inset Newline newline
+\end_inset
-\newline
+
+\begin_inset Newline newline
+\end_inset
+
$ make
\end_layout
@@ -2325,28 +2499,28 @@
\begin_inset ERT
status open
-\begin_layout Standard
+\begin_layout Plain Layout
\backslash
begin{quote}
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\backslash
begin{description}
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\backslash
item [{optimised}] compiles optimized code, with no debugging symbols.
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\backslash
@@ -2354,7 +2528,7 @@
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\backslash
@@ -2367,7 +2541,7 @@
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\backslash
@@ -2376,28 +2550,28 @@
_stats}] enable statistics recording of the memory module.
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\backslash
item [{tau}] compiles the code ready for use with the tau profiler.
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\backslash
item [{pdt}] automatically instruments the code for use with tau using.
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\backslash
end{description}
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\backslash
@@ -2418,8 +2592,26 @@
$ ./configure.sh --options=cautious,memory_stats
\end_layout
+\begin_layout Standard
+Note that the ``build'' directory under
+\family typewriter
+${SNAC_DIR}
+\family default
+ is named according to the given extra options.
+ For example,
+\family typewriter
+${SNAC_DIR}/build-optimised
+\family default
+ is created when
+\family typewriter
+optimised
+\family default
+ option is given.
+\end_layout
+
\begin_layout Section
-\begin_inset LatexCommand label
+\begin_inset CommandInset label
+LatexCommand label
name "sec:Software-Repository"
\end_inset
@@ -2428,11 +2620,16 @@
\end_layout
\begin_layout Standard
-The SNAC source code is available via a Subversion server at the
-\begin_inset LatexCommand htmlurl
-name "Geodynamics website"
-target "geodynamics.org"
+The SNAC source code is available via a Subversion server at the Geodynamics
+ website
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+geodynamics.org
+\end_layout
+
\end_inset
.
@@ -2477,11 +2674,15 @@
\end_layout
\begin_layout Standard
-For more information on Subversion, visit the
-\begin_inset LatexCommand htmlurl
-name "Subversion website"
-target "subversion.tigris.org"
+For more information on Subversion, visit the Subversion website
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+subversion.tigris.org
+\end_layout
+
\end_inset
.
@@ -3038,7 +3239,9 @@
and
\family typewriter
-\newline
+\begin_inset Newline newline
+\end_inset
+
vis_max
\end_layout
@@ -3762,12 +3965,15 @@
\size small
<!-- element ICs: initial conditions for elemental variables.
Currently, material type is not used.
-\newline
- The block for hydrostatic pressure
- should be accompanied by "SnacHydroStaticIC" module in the above
-\newline
- module
- list.
+\begin_inset Newline newline
+\end_inset
+
+ The block for hydrostatic pressure should be accompanied by "SnacHydroStaticIC"
+ module in the above
+\begin_inset Newline newline
+\end_inset
+
+ module list.
-->
\end_layout
@@ -3892,7 +4098,8 @@
.
These types are used to assign values to all the nodes or elements (see
Section
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "sub:Boundary-Conditions-Structure"
\end_inset
@@ -3969,7 +4176,8 @@
\end_layout
\begin_layout Subsection
-\begin_inset LatexCommand label
+\begin_inset CommandInset label
+LatexCommand label
name "sub:Boundary-Conditions-Structure"
\end_inset
@@ -4428,7 +4636,8 @@
\end_layout
\begin_layout Section
-\begin_inset LatexCommand label
+\begin_inset CommandInset label
+LatexCommand label
name "sec:Complete-Example-XML"
\end_inset
@@ -4443,33 +4652,58 @@
\begin_layout Standard
A 3D Cartesian block of elaso-visco-plastic material is extended by the
velocities applied to two side walls.
- The domain has a size of 40\InsetSpace ~
+ The domain has a size of 40
+\begin_inset space ~
+\end_inset
+
\begin_inset Formula $\times$
\end_inset
-\InsetSpace ~
-10\InsetSpace ~
+\begin_inset space ~
+\end_inset
+
+10
+\begin_inset space ~
+\end_inset
+
+
\begin_inset Formula $\times$
\end_inset
-\InsetSpace ~
-80 km and is discretized into 20\InsetSpace ~
+\begin_inset space ~
+\end_inset
+
+80 km and is discretized into 20
+\begin_inset space ~
+\end_inset
+
+
\begin_inset Formula $\times$
\end_inset
-\InsetSpace ~
-5\InsetSpace ~
+\begin_inset space ~
+\end_inset
+
+5
+\begin_inset space ~
+\end_inset
+
+
\begin_inset Formula $\times$
\end_inset
-\InsetSpace ~
+
+\begin_inset space ~
+\end_inset
+
40 elements (Fig.
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "fig:example-problem"
\end_inset
@@ -4511,7 +4745,8 @@
The selection of elements is randomly made within the region at a certain
distance from the left and right boundaries (Fig.
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "fig:example-problem"
\end_inset
@@ -4531,7 +4766,8 @@
Eventually, a long basin bounded by conjugate normal faults is created
(Fig.
-\begin_inset LatexCommand ref
+\begin_inset CommandInset ref
+LatexCommand ref
reference "fig:example-problem"
\end_inset
@@ -4545,7 +4781,7 @@
sideways false
status open
-\begin_layout Standard
+\begin_layout Plain Layout
\begin_inset Graphics
filename figures/example_plots.png
scale 90
@@ -4555,11 +4791,12 @@
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\begin_inset Caption
-\begin_layout Standard
-\begin_inset LatexCommand label
+\begin_layout Plain Layout
+\begin_inset CommandInset label
+LatexCommand label
name "fig:example-problem"
\end_inset
@@ -4569,9 +4806,11 @@
\end_inset
elements.
- (b) Plastic strain mapped on the deformed mesh after 2\InsetSpace ~
-km extension (0.1
- My elapsed).
+ (b) Plastic strain mapped on the deformed mesh after 2
+\begin_inset space ~
+\end_inset
+
+km extension (0.1 My elapsed).
\end_layout
\end_inset
@@ -4579,7 +4818,7 @@
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\end_layout
@@ -5995,33 +6234,49 @@
One is for the open source Open Visualization Data Explorer, better known
as OpenDX.
The other generates Visualization Tool Kit (VTK) files.
- OpenDX with documentation is available from the
-\begin_inset LatexCommand htmlurl
-name "OpenDX website"
-target "www.opendx.org"
+ OpenDX with documentation is available from the OpenDX website
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+www.opendx.org
+\end_layout
+
\end_inset
.
- There are several programs that can visualize VTK files:
-\begin_inset LatexCommand htmlurl
-name "ParaView"
-target "www.paraview.org"
+ There are several programs that can visualize VTK files: ParaView
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+www.paraview.org
+\end_layout
+
\end_inset
-,
-\begin_inset LatexCommand htmlurl
-name "MayaVi2"
-target "https://svn.enthought.com/enthought/wiki/MayaVi"
+, MayaVi2
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+https://svn.enthought.com/enthought/wiki/MayaVi
+\end_layout
+
\end_inset
-, or
-\begin_inset LatexCommand htmlurl
-name "VisIt"
-target "https://wci.llnl.gov/codes/visit/"
+, or VisIt
+\begin_inset Flex URL
+status collapsed
+\begin_layout Plain Layout
+
+https://wci.llnl.gov/codes/visit/
+\end_layout
+
\end_inset
.
@@ -6386,7 +6641,8 @@
\end_layout
\begin_layout Chapter
-\begin_inset LatexCommand label
+\begin_inset CommandInset label
+LatexCommand label
name "cha:Benchmark-Problems"
\end_inset
@@ -6501,7 +6757,7 @@
sideways false
status open
-\begin_layout Standard
+\begin_layout Plain Layout
\noindent
\align center
\begin_inset Graphics
@@ -6514,10 +6770,10 @@
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\begin_inset Caption
-\begin_layout Standard
+\begin_layout Plain Layout
Mesh plotted with velocity boundary conditions
\end_layout
@@ -6526,7 +6782,7 @@
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\end_layout
@@ -6565,7 +6821,7 @@
sideways false
status open
-\begin_layout Standard
+\begin_layout Plain Layout
\noindent
\align center
\begin_inset Graphics
@@ -6578,10 +6834,10 @@
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\begin_inset Caption
-\begin_layout Standard
+\begin_layout Plain Layout
Stress-strain plot
\end_layout
@@ -6690,7 +6946,7 @@
sideways false
status collapsed
-\begin_layout Standard
+\begin_layout Plain Layout
\noindent
\align center
\begin_inset Graphics
@@ -6703,10 +6959,10 @@
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\begin_inset Caption
-\begin_layout Standard
+\begin_layout Plain Layout
Mesh plotted with pressure boundary conditions
\end_layout
@@ -6737,7 +6993,7 @@
sideways false
status open
-\begin_layout Standard
+\begin_layout Plain Layout
\noindent
\align center
\begin_inset Graphics
@@ -6750,10 +7006,10 @@
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\begin_inset Caption
-\begin_layout Standard
+\begin_layout Plain Layout
Second invariant of stress field
\end_layout
@@ -6775,7 +7031,7 @@
sideways false
status open
-\begin_layout Standard
+\begin_layout Plain Layout
\noindent
\align center
\begin_inset Graphics
@@ -6788,10 +7044,10 @@
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\begin_inset Caption
-\begin_layout Standard
+\begin_layout Plain Layout
Profile of the second invariant of stress along radial direction
\end_layout
@@ -6905,7 +7161,7 @@
sideways false
status open
-\begin_layout Standard
+\begin_layout Plain Layout
\noindent
\align center
\begin_inset Graphics
@@ -6918,10 +7174,10 @@
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\begin_inset Caption
-\begin_layout Standard
+\begin_layout Plain Layout
Profile of the second invariant of stress along radial direction.
\end_layout
@@ -6943,61 +7199,73 @@
sideways false
status open
-\begin_layout Standard
+\begin_layout Plain Layout
\noindent
\align center
\begin_inset Tabular
<lyxtabular version="3" rows="7" columns="3">
<features>
-<column alignment="center" valignment="top" leftline="true" width="0">
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-<row topline="true" bottomline="true">
-<cell alignment="center" valignment="top" topline="true" leftline="true" usebox="none">
+<column alignment="center" valignment="top" width="0">
+<column alignment="center" valignment="top" width="0">
+<column alignment="center" valignment="top" width="0">
+<row>
+<cell alignment="center" valignment="top" topline="true" bottomline="true" leftline="true" usebox="none">
\begin_inset Text
-\begin_layout Standard
+\begin_layout Plain Layout
Resolution
\end_layout
\end_inset
</cell>
-<cell alignment="center" valignment="top" topline="true" leftline="true" usebox="none">
+<cell alignment="center" valignment="top" topline="true" bottomline="true" leftline="true" usebox="none">
\begin_inset Text
-\begin_layout Standard
+\begin_layout Plain Layout
Mohr-Coulomb
\end_layout
\end_inset
</cell>
-<cell alignment="center" valignment="top" topline="true" leftline="true" rightline="true" usebox="none">
+<cell alignment="center" valignment="top" topline="true" bottomline="true" leftline="true" rightline="true" usebox="none">
\begin_inset Text
-\begin_layout Standard
+\begin_layout Plain Layout
Elastic
\end_layout
\end_inset
</cell>
</row>
-<row topline="true">
+<row>
<cell alignment="center" valignment="top" topline="true" leftline="true" usebox="none">
\begin_inset Text
-\begin_layout Standard
-31\InsetSpace ~
+\begin_layout Plain Layout
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+\begin_inset space ~
+\end_inset
+
\begin_inset Formula $\times$
\end_inset
-\InsetSpace ~
-3\InsetSpace ~
+\begin_inset space ~
+\end_inset
+
+3
+\begin_inset space ~
+\end_inset
+
+
\begin_inset Formula $\times$
\end_inset
-\InsetSpace ~
+
+\begin_inset space ~
+\end_inset
+
31
\end_layout
@@ -7006,7 +7274,7 @@
<cell alignment="center" valignment="top" topline="true" leftline="true" usebox="none">
\begin_inset Text
-\begin_layout Standard
+\begin_layout Plain Layout
0.14%
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@@ -7015,30 +7283,42 @@
<cell alignment="center" valignment="top" topline="true" leftline="true" rightline="true" usebox="none">
\begin_inset Text
-\begin_layout Standard
+\begin_layout Plain Layout
0.31%
\end_layout
\end_inset
</cell>
</row>
-<row topline="true">
+<row>
<cell alignment="center" valignment="top" topline="true" leftline="true" usebox="none">
\begin_inset Text
-\begin_layout Standard
-25\InsetSpace ~
+\begin_layout Plain Layout
+25
+\begin_inset space ~
+\end_inset
+
\begin_inset Formula $\times$
\end_inset
-\InsetSpace ~
-3\InsetSpace ~
+\begin_inset space ~
+\end_inset
+
+3
+\begin_inset space ~
+\end_inset
+
+
\begin_inset Formula $\times$
\end_inset
-\InsetSpace ~
+
+\begin_inset space ~
+\end_inset
+
25
\end_layout
@@ -7047,7 +7327,7 @@
<cell alignment="center" valignment="top" topline="true" leftline="true" usebox="none">
\begin_inset Text
-\begin_layout Standard
+\begin_layout Plain Layout
0.74%
\end_layout
@@ -7056,30 +7336,42 @@
<cell alignment="center" valignment="top" topline="true" leftline="true" rightline="true" usebox="none">
\begin_inset Text
-\begin_layout Standard
+\begin_layout Plain Layout
0.39%
\end_layout
\end_inset
</cell>
</row>
-<row topline="true">
+<row>
<cell alignment="center" valignment="top" topline="true" leftline="true" usebox="none">
\begin_inset Text
-\begin_layout Standard
-21\InsetSpace ~
+\begin_layout Plain Layout
+21
+\begin_inset space ~
+\end_inset
+
\begin_inset Formula $\times$
\end_inset
-\InsetSpace ~
-3\InsetSpace ~
+\begin_inset space ~
+\end_inset
+
+3
+\begin_inset space ~
+\end_inset
+
+
\begin_inset Formula $\times$
\end_inset
-\InsetSpace ~
+
+\begin_inset space ~
+\end_inset
+
21
\end_layout
@@ -7088,7 +7380,7 @@
<cell alignment="center" valignment="top" topline="true" leftline="true" usebox="none">
\begin_inset Text
-\begin_layout Standard
+\begin_layout Plain Layout
1.05%
\end_layout
@@ -7097,30 +7389,42 @@
<cell alignment="center" valignment="top" topline="true" leftline="true" rightline="true" usebox="none">
\begin_inset Text
-\begin_layout Standard
+\begin_layout Plain Layout
0.52%
\end_layout
\end_inset
</cell>
</row>
-<row topline="true">
+<row>
<cell alignment="center" valignment="top" topline="true" leftline="true" usebox="none">
\begin_inset Text
-\begin_layout Standard
-17\InsetSpace ~
+\begin_layout Plain Layout
+17
+\begin_inset space ~
+\end_inset
+
\begin_inset Formula $\times$
\end_inset
-\InsetSpace ~
-3\InsetSpace ~
+\begin_inset space ~
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+
+3
+\begin_inset space ~
+\end_inset
+
+
\begin_inset Formula $\times$
\end_inset
-\InsetSpace ~
+
+\begin_inset space ~
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17
\end_layout
@@ -7129,7 +7433,7 @@
<cell alignment="center" valignment="top" topline="true" leftline="true" usebox="none">
\begin_inset Text
-\begin_layout Standard
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<cell alignment="center" valignment="top" topline="true" leftline="true" rightline="true" usebox="none">
\begin_inset Text
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0.56%
\end_layout
\end_inset
</cell>
</row>
-<row topline="true">
+<row>
<cell alignment="center" valignment="top" topline="true" leftline="true" usebox="none">
\begin_inset Text
-\begin_layout Standard
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+
\begin_inset Formula $\times$
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-\InsetSpace ~
-3\InsetSpace ~
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+
+3
+\begin_inset space ~
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+
+
\begin_inset Formula $\times$
\end_inset
-\InsetSpace ~
+
+\begin_inset space ~
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13
\end_layout
@@ -7170,7 +7486,7 @@
<cell alignment="center" valignment="top" topline="true" leftline="true" usebox="none">
\begin_inset Text
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0.88%
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<cell alignment="center" valignment="top" topline="true" leftline="true" rightline="true" usebox="none">
\begin_inset Text
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0.59%
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</cell>
</row>
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-<cell alignment="center" valignment="top" topline="true" leftline="true" usebox="none">
+<row>
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\begin_inset Text
-\begin_layout Standard
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+
\begin_inset Formula $\times$
\end_inset
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-3\InsetSpace ~
+\begin_inset space ~
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+
+3
+\begin_inset space ~
+\end_inset
+
+
\begin_inset Formula $\times$
\end_inset
-\InsetSpace ~
+
+\begin_inset space ~
+\end_inset
+
9
\end_layout
\end_inset
</cell>
-<cell alignment="center" valignment="top" topline="true" leftline="true" usebox="none">
+<cell alignment="center" valignment="top" topline="true" bottomline="true" leftline="true" usebox="none">
\begin_inset Text
-\begin_layout Standard
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1.12%
\end_layout
\end_inset
</cell>
-<cell alignment="center" valignment="top" topline="true" leftline="true" rightline="true" usebox="none">
+<cell alignment="center" valignment="top" topline="true" bottomline="true" leftline="true" rightline="true" usebox="none">
\begin_inset Text
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@@ -7234,10 +7562,10 @@
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\begin_inset Caption
-\begin_layout Standard
+\begin_layout Plain Layout
Relative errors for Thick Cylinder Benchmark Problem II.
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@@ -7266,7 +7594,8 @@
Each plate has the length of 2L and is at a distance 2h from the other.
No slip is assumed between the material and the plates.
The approximate analytical solution is given by Jaeger
-\begin_inset LatexCommand cite
+\begin_inset CommandInset citation
+LatexCommand cite
key "Jaeger_1969"
\end_inset
@@ -7345,7 +7674,7 @@
sideways false
status open
-\begin_layout Standard
+\begin_layout Plain Layout
\noindent
\align center
\begin_inset Graphics
@@ -7358,10 +7687,10 @@
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\begin_inset Caption
-\begin_layout Standard
+\begin_layout Plain Layout
The initial mesh (blue) with the velocity boundary condition (red arrows).
\end_layout
@@ -7401,7 +7730,7 @@
sideways false
status open
-\begin_layout Standard
+\begin_layout Plain Layout
\noindent
\align center
\begin_inset Graphics
@@ -7414,10 +7743,10 @@
\end_layout
-\begin_layout Standard
+\begin_layout Plain Layout
\begin_inset Caption
-\begin_layout Standard
+\begin_layout Plain Layout
The second invariant of stress and velocities plotted on the deformed mesh.
Colored arrows are for SNAC's solution, black ones for the analytic solution.
\end_layout
@@ -7433,7 +7762,8 @@
\end_layout
\begin_layout Chapter
-\begin_inset LatexCommand label
+\begin_inset CommandInset label
+LatexCommand label
name "cha:License"
\end_inset
@@ -7449,8 +7779,10 @@
59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
\series default
-\newline
+\begin_inset Newline newline
+\end_inset
+
\series medium
Everyone is permitted to copy and distribute verbatim copies of this license
document, but changing it is not allowed.
@@ -7540,7 +7872,7 @@
\begin_inset ERT
status collapsed
-\begin_layout Standard
+\begin_layout Plain Layout
\backslash
@@ -7556,7 +7888,7 @@
\begin_inset ERT
status collapsed
-\begin_layout Standard
+\begin_layout Plain Layout
\backslash
@@ -7575,12 +7907,15 @@
into another language.
(Hereinafter, translation is included without limitation in the term ``modifica
tion.'') Each licensee is addressed as ``you.''
-\newline
+\begin_inset Newline newline
+\end_inset
-\newline
-Activities other than copying,
- distribution and modification are not covered by this License; they are
- outside its scope.
+
+\begin_inset Newline newline
+\end_inset
+
+Activities other than copying, distribution and modification are not covered
+ by this License; they are outside its scope.
The act of running the Program is not restricted, and the output from the
Program is covered only if its contents constitute a work based on the
Program (independent of having been made by running the Program).
@@ -7592,7 +7927,7 @@
\begin_inset ERT
status collapsed
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status collapsed
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status collapsed
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\begin_inset ERT
status collapsed
-\begin_layout Standard
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\backslash
@@ -8041,9 +8376,13 @@
\begin_layout Quote
(signature of Ty Coon)
-\newline
+\begin_inset Newline newline
+\end_inset
+
1 April 1989
-\newline
+\begin_inset Newline newline
+\end_inset
+
Ty Coon, President of Vice
\end_layout
@@ -8057,7 +8396,8 @@
\end_layout
\begin_layout Bibliography
-\begin_inset LatexCommand bibitem
+\begin_inset CommandInset bibitem
+LatexCommand bibitem
label "1"
key "MartCund1982"
@@ -8079,7 +8419,8 @@
\end_layout
\begin_layout Bibliography
-\begin_inset LatexCommand bibitem
+\begin_inset CommandInset bibitem
+LatexCommand bibitem
label "2"
key "Cundall1989"
@@ -8099,7 +8440,8 @@
\end_layout
\begin_layout Bibliography
-\begin_inset LatexCommand bibitem
+\begin_inset CommandInset bibitem
+LatexCommand bibitem
label "3"
key "Wilkins1964"
@@ -8116,7 +8458,8 @@
\end_layout
\begin_layout Bibliography
-\begin_inset LatexCommand bibitem
+\begin_inset CommandInset bibitem
+LatexCommand bibitem
label "4"
key "Needleman1988"
@@ -8136,7 +8479,8 @@
\end_layout
\begin_layout Bibliography
-\begin_inset LatexCommand bibitem
+\begin_inset CommandInset bibitem
+LatexCommand bibitem
label "5"
key "OrtiSimo1986"
@@ -8158,7 +8502,8 @@
\end_layout
\begin_layout Bibliography
-\begin_inset LatexCommand bibitem
+\begin_inset CommandInset bibitem
+LatexCommand bibitem
label "6"
key "OrtiQuig1991"
@@ -8178,7 +8523,8 @@
\end_layout
\begin_layout Bibliography
-\begin_inset LatexCommand bibitem
+\begin_inset CommandInset bibitem
+LatexCommand bibitem
label "7"
key "Quen_etal2005"
@@ -8200,7 +8546,8 @@
\end_layout
\begin_layout Bibliography
-\begin_inset LatexCommand bibitem
+\begin_inset CommandInset bibitem
+LatexCommand bibitem
label "8"
key "Tan_etal2004"
@@ -8221,7 +8568,8 @@
\end_layout
\begin_layout Bibliography
-\begin_inset LatexCommand bibitem
+\begin_inset CommandInset bibitem
+LatexCommand bibitem
label "9"
key "Jaeger_1969"
@@ -8237,7 +8585,8 @@
\end_layout
\begin_layout Bibliography
-\begin_inset LatexCommand bibitem
+\begin_inset CommandInset bibitem
+LatexCommand bibitem
label "10"
key "Zien_etal1995"
@@ -8258,7 +8607,8 @@
\end_layout
\begin_layout Bibliography
-\begin_inset LatexCommand bibitem
+\begin_inset CommandInset bibitem
+LatexCommand bibitem
label "11"
key "Bathe_1996"
@@ -8274,7 +8624,8 @@
\end_layout
\begin_layout Bibliography
-\begin_inset LatexCommand bibitem
+\begin_inset CommandInset bibitem
+LatexCommand bibitem
label "12"
key "Albe_etal2000"
@@ -8295,7 +8646,8 @@
\end_layout
\begin_layout Bibliography
-\begin_inset LatexCommand bibitem
+\begin_inset CommandInset bibitem
+LatexCommand bibitem
label "13"
key "Poli_etal1993a"
@@ -8315,7 +8667,8 @@
\end_layout
\begin_layout Bibliography
-\begin_inset LatexCommand bibitem
+\begin_inset CommandInset bibitem
+LatexCommand bibitem
label "14"
key "SimoHugh2004"
@@ -8332,7 +8685,8 @@
\end_layout
\begin_layout Bibliography
-\begin_inset LatexCommand bibitem
+\begin_inset CommandInset bibitem
+LatexCommand bibitem
label "15"
key "RudnRice1975"
@@ -8352,7 +8706,8 @@
\end_layout
\begin_layout Bibliography
-\begin_inset LatexCommand bibitem
+\begin_inset CommandInset bibitem
+LatexCommand bibitem
label "16"
key "Cundall_1987"
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