[cig-commits] r7485 - in short/3D/PyLith/trunk/doc/userguide: .
boundaryconditions governingeqns install intro runpylith
tutorials tutorials/twoquad4 tutorials/twotet4 tutorials/twotri3
sue at geodynamics.org
sue at geodynamics.org
Mon Jun 25 13:52:17 PDT 2007
Author: sue
Date: 2007-06-25 13:52:16 -0700 (Mon, 25 Jun 2007)
New Revision: 7485
Modified:
short/3D/PyLith/trunk/doc/userguide/boundaryconditions/boundaryconditions.lyx
short/3D/PyLith/trunk/doc/userguide/governingeqns/governingeqns.lyx
short/3D/PyLith/trunk/doc/userguide/install/install.lyx
short/3D/PyLith/trunk/doc/userguide/intro/intro.lyx
short/3D/PyLith/trunk/doc/userguide/runpylith/runpylith.lyx
short/3D/PyLith/trunk/doc/userguide/tutorials/tutorials.lyx
short/3D/PyLith/trunk/doc/userguide/tutorials/twoquad4/twoquad4.lyx
short/3D/PyLith/trunk/doc/userguide/tutorials/twotet4/twotet4.lyx
short/3D/PyLith/trunk/doc/userguide/tutorials/twotri3/twotri3.lyx
short/3D/PyLith/trunk/doc/userguide/userguide.lyx
Log:
various edits and format fixes
Modified: short/3D/PyLith/trunk/doc/userguide/boundaryconditions/boundaryconditions.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/boundaryconditions/boundaryconditions.lyx 2007-06-25 20:25:03 UTC (rev 7484)
+++ short/3D/PyLith/trunk/doc/userguide/boundaryconditions/boundaryconditions.lyx 2007-06-25 20:52:16 UTC (rev 7485)
@@ -776,7 +776,7 @@
<features>
<column alignment="left" valignment="top" leftline="true" width="0.75in">
<column alignment="center" valignment="top" leftline="true" width="1.3in">
-<column alignment="center" valignment="top" leftline="true" rightline="true" width="2.75in">
+<column alignment="center" valignment="top" leftline="true" rightline="true" width="2in">
<row topline="true" bottomline="true">
<cell alignment="center" valignment="top" topline="true" leftline="true" usebox="none">
\begin_inset Text
@@ -894,7 +894,7 @@
\begin_layout Standard
\align center
\begin_inset Graphics
- filename figs/quad4cohesive.fig
+ filename figs/quad4cohesive.eps
\end_inset
Modified: short/3D/PyLith/trunk/doc/userguide/governingeqns/governingeqns.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/governingeqns/governingeqns.lyx 2007-06-25 20:25:03 UTC (rev 7484)
+++ short/3D/PyLith/trunk/doc/userguide/governingeqns/governingeqns.lyx 2007-06-25 20:52:16 UTC (rev 7485)
@@ -688,7 +688,7 @@
\end_inset
-Expanding the left hand side yields
+Expanding the left-hand side yields
\begin_inset Formula \begin{gather}
\int_{V}\sigma_{ij,j}\phi_{i}\: dV+\int_{V}\sigma_{ij}\phi_{i,j}\: dV=\int_{S}\sigma_{ij}\phi_{i}n_{i}\: dS,\text{ or}\\
\int_{V}\sigma_{ij,j}\phi_{i}\: dV=-\int_{V}\sigma_{ij}\phi_{i,j}\, dV+\int_{S}\sigma_{ij}\phi_{i}n_{i}\, dS.\end{gather}
@@ -772,7 +772,7 @@
\end_inset
This is the equation we want to solve.
- Discretizing into finite-elements separates the integral over the domain
+ Discretizing into finite elements separates the integral over the domain
and boundaries into a sum of integrals over elements and element boundaries,
\begin_inset Formula \begin{equation}
\sum_{elements}(\int_{V^{e}}\frac{1}{2}\sigma_{ij}(\phi_{i,j}+\phi_{j,i})\, dV+\int_{V^{e}}\rho\ddot{u}_{i}\phi_{i}\, dV-\int_{V^{e}}f_{i}\phi_{i}\, dV-\int_{S_{t}^{e}}T_{i}\phi_{i}\, dS)=0.\end{equation}
@@ -986,7 +986,7 @@
\end_inset
This is the equation we want to solve.
- Discretizing into finite-elements separates the integral over the domain
+ Discretizing into finite elements separates the integral over the domain
and boundaries into a sum of integrals over elements and element boundaries,
\begin_inset Formula \begin{equation}
\sum_{elements}(\int_{V^{e}}\frac{1}{2}\underline{\sigma}:(\nabla+\nabla^{T})\overrightarrow{\phi}\, dV+\int_{V^{e}}\rho\frac{\partial^{2}\overrightarrow{u}}{\partial t^{2}}\cdot\overrightarrow{\phi}\, dV-\int_{V^{e}}\overrightarrow{f}\cdot\overrightarrow{\phi}\, dV-\int_{S_{t}^{e}}\overrightarrow{T}\cdot\overrightarrow{\phi}\, dS)=0.\end{equation}
Modified: short/3D/PyLith/trunk/doc/userguide/install/install.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/install/install.lyx 2007-06-25 20:25:03 UTC (rev 7484)
+++ short/3D/PyLith/trunk/doc/userguide/install/install.lyx 2007-06-25 20:52:16 UTC (rev 7485)
@@ -69,7 +69,7 @@
is dedicated to CIG issues associated with short-term crustal dynamics,
including the use of PyLith.
You can subscribe to the mailing list and view messages at
-\begin_inset LatexCommand \htmlurl[cig-short Mailing List]{www.geodynamics.org/cig/lists/cig-short}
+\begin_inset LatexCommand \htmlurl[cig-short Mailing List]{geodynamics.org/cig/lists/cig-short}
\end_inset
@@ -84,7 +84,7 @@
\family default
for bug tracking.
If you find a bug in PyLith, please submit a bug report to the
-\begin_inset LatexCommand \htmlurl[CIG Roundup System]{www.geodynamics.org/roundup/}
+\begin_inset LatexCommand \htmlurl[CIG Roundup System]{geodynamics.org/roundup/}
\end_inset
@@ -110,8 +110,8 @@
\begin_layout Standard
Binary executables are available for Linux, Mac OSX (Power PC), and Windows
- (cygwin) from
-\begin_inset LatexCommand \htmlurl[CIG website]{http://www.geodynamics.org/cig/software/packages/short/pylith/}
+ (cygwin) from the
+\begin_inset LatexCommand \htmlurl[CIG website]{geodynamics.org/cig/software/packages/short/pylith/}
\end_inset
@@ -140,10 +140,11 @@
\end_layout
\begin_layout Itemize
-Download the tarball for Linux from
-\family typewriter
-http://www.geodynamics.org/cig/software/packages/short/pylith/
-\family default
+Download the
+\begin_inset LatexCommand \htmlurl[Linux tarball]{geodynamics.org/cig/software/packages/short/pylith/}
+
+\end_inset
+
and save it to the desired location, e.g.,
\family typewriter
$HOME/pylith
@@ -189,10 +190,11 @@
\end_layout
\begin_layout Itemize
-Download the tarball for Darwin from
-\family typewriter
-http://www.geodynamics.org/cig/software/packages/short/pylith/
-\family default
+Download the
+\begin_inset LatexCommand \htmlurl[Darwin tarball]{geodynamics.org/cig/software/packages/short/pylith/}
+
+\end_inset
+
and save it to the desired location, e.g.,
\family typewriter
$HOME/pylith
@@ -221,11 +223,12 @@
\end_layout
\begin_layout Itemize
-Download the installer from
-\family typewriter
-http://www.geodynamics.org/cig/software/packages/short/pylith/
-\family default
- and save it to your desktop and run the installer.
+Download the
+\begin_inset LatexCommand \htmlurl[Windows installer]{geodynamics.org/cig/software/packages/short/pylith/}
+
+\end_inset
+
+, save it to your desktop, and run the installer.
\end_layout
\begin_layout Section
Modified: short/3D/PyLith/trunk/doc/userguide/intro/intro.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/intro/intro.lyx 2007-06-25 20:25:03 UTC (rev 7484)
+++ short/3D/PyLith/trunk/doc/userguide/intro/intro.lyx 2007-06-25 20:52:16 UTC (rev 7485)
@@ -73,7 +73,7 @@
The major new features present in Lithomop included dynamic memory allocation
and the use of the Pyre simulation framework and PETSc solvers.
EqSim was written by Brad Aagaard to solve problems in earthquake dynamics,
- including rupture propagaiton and seismic wave propagation.
+ including rupture propagation and seismic wave propagation.
\end_layout
\begin_layout Standard
Modified: short/3D/PyLith/trunk/doc/userguide/runpylith/runpylith.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/runpylith/runpylith.lyx 2007-06-25 20:25:03 UTC (rev 7484)
+++ short/3D/PyLith/trunk/doc/userguide/runpylith/runpylith.lyx 2007-06-25 20:52:16 UTC (rev 7485)
@@ -930,7 +930,7 @@
.cfg
\family default
file is used to associate material types and spatial databases with cells
- identified by the material identifier (see Chapter
+ identified by the material identifier (see Figure
\begin_inset LatexCommand \ref{fig:Material-models}
\end_inset
Modified: short/3D/PyLith/trunk/doc/userguide/tutorials/tutorials.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/tutorials/tutorials.lyx 2007-06-25 20:25:03 UTC (rev 7484)
+++ short/3D/PyLith/trunk/doc/userguide/tutorials/tutorials.lyx 2007-06-25 20:52:16 UTC (rev 7485)
@@ -69,12 +69,12 @@
\color none
For more complex tutorials, you will also need either the
-\begin_inset LatexCommand \htmlurl[CUBIT]{http://cubit.sandia.gov}
+\begin_inset LatexCommand \htmlurl[CUBIT]{cubit.sandia.gov}
\end_inset
or
-\begin_inset LatexCommand \htmlurl[LaGriT]{http://meshing.lanl.gov}
+\begin_inset LatexCommand \htmlurl[LaGriT]{meshing.lanl.gov}
\end_inset
@@ -105,7 +105,7 @@
examples/twocells
\family default
, each consisting of just two cells (elements).
- These very simple examples make use of PyLith Mesh ASCII format to describe
+ These very simple examples make use of PyLith mesh ASCII format to describe
the mesh.
This format is useful for understanding the basics of how PyLith works,
since it is easy to create these files by hand.
Modified: short/3D/PyLith/trunk/doc/userguide/tutorials/twoquad4/twoquad4.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/tutorials/twoquad4/twoquad4.lyx 2007-06-25 20:25:03 UTC (rev 7484)
+++ short/3D/PyLith/trunk/doc/userguide/tutorials/twoquad4/twoquad4.lyx 2007-06-25 20:52:16 UTC (rev 7485)
@@ -1,4 +1,4 @@
-#LyX 1.4.4 created this file. For more info see http://www.lyx.org/
+#LyX 1.4.3 created this file. For more info see http://www.lyx.org/
\lyxformat 245
\begin_document
\begin_header
@@ -21,7 +21,7 @@
\leftmargin 1in
\topmargin 1in
\rightmargin 1in
-\bottommargin 2in
+\bottommargin 1in
\secnumdepth 3
\tocdepth 3
\paragraph_separation indent
@@ -73,7 +73,7 @@
\end_inset
).
- The mesh geometry and topology is described in the file
+ The mesh geometry and topology are described in the file
\family typewriter
twoquad4.mesh
\family default
@@ -92,6 +92,8 @@
\end_layout
\begin_layout Standard
+\noindent
+\align center
\begin_inset Float figure
wide false
sideways false
@@ -139,7 +141,11 @@
.cfg
\family default
files, as described later, and placed on the command line.
- The settings contained in pylithapp.cfg for this problem consist of:
+ The settings contained in
+\family typewriter
+pylithapp.cfg
+\family default
+ for this problem consist of:
\end_layout
\begin_layout Description
@@ -159,7 +165,7 @@
\begin_layout Description
pylithapp.timedependent.materials Settings that control the material type,
- specify which material ID's are to be associated with a particular material
+ specify which material IDs are to be associated with a particular material
type, and give the name of the spatial database containing material parameters
for the mesh.
The quadrature information is also given.
@@ -173,10 +179,18 @@
\begin_layout Standard
All of the problems in this directory use the same material database, as
specified under
+\end_layout
+
+\begin_layout LyX-Code
+
\family typewriter
pylithapp.timedependent.materials
\family default
- in
+
+\end_layout
+
+\begin_layout Standard
+in
\family typewriter
pylithapp.cfg
\family default
@@ -204,7 +218,7 @@
\end_layout
\begin_layout Standard
-The first example problem is extension of the mesh along the x-axis.
+The first example problem is extension of the mesh along the x axis.
Parameter settings that override or augment those in
\family typewriter
pylithapp.cfg
@@ -218,8 +232,8 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent We specify an implicit formulation for the problem
- and specify a container for boundary conditions (
+pylithapp.timedependent Specifies an implicit formulation for the problem
+ and specifies a container for boundary conditions (
\family typewriter
pylith.bc.BC
\family default
@@ -228,13 +242,13 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent.bc.x_neg We specify the boundary conditions for the
+pylithapp.timedependent.bc.x_neg Specifies the boundary conditions for the
left side of the mesh, defining which degrees of freedom are being constrained
(x), giving the label (defined in
\family typewriter
twoquad4.mesh
\family default
-) defining the points we want, assigning a label to the boundary condition
+) defining the points desired, assigning a label to the boundary condition
set, and giving the name of the spatial database defining the boundary
conditions (
\family typewriter
@@ -244,13 +258,13 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent.bc.x_pos We specify the boundary conditions for the
+pylithapp.timedependent.bc.x_pos Specifies the boundary conditions for the
right side of the mesh, defining which degrees of freedom are being constrained
(x), giving the label (defined in
\family typewriter
twoquad4.mesh
\family default
-) defining the points we want, assigning a label to the boundary condition
+) defining the points desired, assigning a label to the boundary condition
set, and giving the name of the spatial database defining the boundary
conditions (
\family typewriter
@@ -260,13 +274,13 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent.bc.y_neg We specify the boundary conditions for the
+pylithapp.timedependent.bc.y_neg Specifies the boundary conditions for the
bottom two corners of the mesh, defining which degrees of freedom are being
constrained (y), giving the label (defined in
\family typewriter
twoquad4.mesh
\family default
-) defining the points we want, assigning a label to the boundary condition
+) defining the points desired, assigning a label to the boundary condition
set, and giving the name of the spatial database defining the boundary
conditions (
\family typewriter
@@ -276,7 +290,7 @@
\end_layout
\begin_layout Description
-pylithapp.problem.formulation.output.output We give the base filename for VTK
+pylithapp.problem.formulation.output.output Gives the base filename for VTK
output (
\family typewriter
axialdisp.vtk
@@ -294,7 +308,7 @@
axialdisp.cfg
\family default
.
- In this case, we give the desired displacement values at two points.
+ In this case, the desired displacement values is given at two points.
Since data is being specified at points (rather than being uniform over
the mesh, for example), the data dimension is one.
\end_layout
@@ -321,7 +335,7 @@
axialdisp.spatialdb
\family default
) provide a complete description of the problem, and we can then run this
- example by typing:
+ example by typing
\end_layout
\begin_layout LyX-Code
@@ -329,14 +343,14 @@
\end_layout
\begin_layout Standard
-Once the problem has run, there will be a file called
+Once the problem has run, a file called
\family typewriter
axialdisp_t0.vtk
\family default
-, which may be used with a number of visualization packages.
+ is produced which may be used with a number of visualization packages.
If the problem ran correctly, you should be able to generate a figure such
as
-\begin_inset LatexCommand \ref{fig:twoquad4-axial}
+\begin_inset LatexCommand \vref{fig:twoquad4-axial}
\end_inset
@@ -344,7 +358,10 @@
\end_layout
\begin_layout Standard
+\noindent
+\align center
\begin_inset Float figure
+placement t
wide false
sideways false
status open
@@ -354,7 +371,7 @@
\begin_inset Graphics
filename figs/axialdisp.jpg
lyxscale 50
- scale 50
+ scale 45
\end_inset
@@ -395,8 +412,8 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent We specify an implicit formulation for the problem
- and specify a container for boundary conditions (
+pylithapp.timedependent Specifies an implicit formulation for the problem
+ and specifies a container for boundary conditions (
\family typewriter
pylith.bc.BCFourSides
\family default
@@ -404,7 +421,7 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent.bc.x_neg We specify the boundary conditions for the
+pylithapp.timedependent.bc.x_neg Specifies the boundary conditions for the
left side of the mesh, defining which degrees of freedom are being constrained
(x and y), giving the label (
\family typewriter
@@ -414,7 +431,7 @@
\family typewriter
twoquad4.mesh
\family default
-) defining the points we want, assigning a label to the boundary condition
+) defining the points desired, assigning a label to the boundary condition
set, and giving the name of the spatial database defining the boundary
conditions (
\family typewriter
@@ -424,7 +441,7 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent.bc.x_pos We specify the boundary conditions for the
+pylithapp.timedependent.bc.x_pos Specifies the boundary conditions for the
left side of the mesh, defining which degrees of freedom are being constrained
(y only), giving the label (
\family typewriter
@@ -434,7 +451,7 @@
\family typewriter
twoquad4.mesh
\family default
-) defining the points we want, assigning a label to the boundary condition
+) defining the points desired, assigning a label to the boundary condition
set, and giving the name of the spatial database defining the boundary
conditions (
\family typewriter
@@ -444,7 +461,7 @@
\end_layout
\begin_layout Description
-pylithapp.problem.formulation.output.output We give the base filename for VTK
+pylithapp.problem.formulation.output.output Gives the base filename for VTK
output (
\family typewriter
sheardisp.vtk
@@ -462,8 +479,8 @@
sheardisp.cfg
\family default
.
- In this case, we give the desired displacement values at two points, correspond
-ing to the two edges we want to constrain.
+ In this case, the desired displacement values are given at two points,
+ corresponding to the two edges we want to constrain.
Since data is being specified at points (rather than being uniform over
the mesh, for example), the data dimension is one.
\end_layout
@@ -490,7 +507,7 @@
sheardisp.spatialdb
\family default
) provide a complete description of the problem, and we can then run this
- example by typing:
+ example by typing
\end_layout
\begin_layout LyX-Code
@@ -498,14 +515,14 @@
\end_layout
\begin_layout Standard
-Once the problem has run, there will be a file called
+Once the problem has run, a file called
\family typewriter
sheardisp_t0.vtk
\family default
-, which may be used with a number of visualization packages.
+, is produced which may be used with a number of visualization packages.
If the problem ran correctly, you should be able to generate a figure such
as
-\begin_inset LatexCommand \ref{fig:twoquad4-shear}
+\begin_inset LatexCommand \vref{fig:twoquad4-shear}
\end_inset
@@ -523,7 +540,7 @@
\begin_inset Graphics
filename figs/sheardispl.jpg
lyxscale 50
- scale 50
+ scale 45
\end_inset
@@ -565,18 +582,18 @@
\end_layout
\begin_layout Description
-pylithapp.journal.info We turn on journaling for 1D quadrature (used for 2D
+pylithapp.journal.info Turns on journaling for 1D quadrature (used for 2D
faults) and for cohesive kinematic faults.
\end_layout
\begin_layout Description
-pylithapp.timedependent We specify an implicit formulation for the problem,
- specify a container for boundary conditions (
+pylithapp.timedependent Specifies an implicit formulation for the problem,
+ specifies a container for boundary conditions (
\family typewriter
pylith.bc.BC
\family default
FourSides) that allows them to be given along the edges of a rectangular
- domain, and specify a container for a single fault (
+ domain, and specifies a container for a single fault (
\family typewriter
pylith.faults.SingleFault
\family default
@@ -584,7 +601,7 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent.bc.x_neg We specify the boundary conditions for the
+pylithapp.timedependent.bc.x_neg Specifies the boundary conditions for the
left side of the mesh, defining which degrees of freedom are being constrained
(x and y), giving the label (
\family typewriter
@@ -594,7 +611,7 @@
\family typewriter
twoquad4.mesh
\family default
-) defining the points we want, assigning a label to the boundary condition
+) defining the points desired, assigning a label to the boundary condition
set, and giving the name of the spatial database defining the boundary
conditions (
\family typewriter
@@ -604,7 +621,7 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent.bc.x_pos We specify the boundary conditions for the
+pylithapp.timedependent.bc.x_pos Specifies the boundary conditions for the
left side of the mesh, defining which degrees of freedom are being constrained
(x and y), giving the label (
\family typewriter
@@ -614,7 +631,7 @@
\family typewriter
twoquad4.mesh
\family default
-) defining the points we want, assigning a label to the boundary condition
+) defining the points desired, assigning a label to the boundary condition
set, and giving the name of the spatial database defining the boundary
conditions (
\family typewriter
@@ -624,20 +641,22 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent.interfaces We give the label (defined in
+pylithapp.timedependent.interfaces Gives the label (defined in
\family typewriter
twoquad4.mesh
\family default
-) defining the points on the fault, provide quadrature information, and
- then give database names for material properties (needed for conditioning),
+) defining the points on the fault, provides quadrature information, and
+ then gives database names for material properties (needed for conditioning),
fault slip, fault slip rate, and fault slip time.
\end_layout
\begin_layout Description
-pylithapp.problem.formulation.output.output We give the base filename for VTK
+pylithapp.problem.formulation.output.output Gives the base filename for VTK
output (
\family typewriter
-dislocation.vtk
+dislocation
+\newline
+.vtk
\family default
).
\end_layout
@@ -649,10 +668,12 @@
\family default
, as specified in
\family typewriter
-dislocation.cfg
+dislocation
+\newline
+.cfg
\family default
.
- In this case, we give the desired displacement values for two points.
+ In this case, the desired displacement values are given for two points.
Since data is being specified at points, the data dimension is one.
\end_layout
@@ -704,6 +725,7 @@
\family default
) along with the problem-specific files (
\family typewriter
+\size small
dislocation.cfg
\family default
,
@@ -722,8 +744,9 @@
\family typewriter
dislocation_sliptime.spatialdb
\family default
+\size default
) provide a complete description of the problem, and we can then run this
- example by typing:
+ example by typing
\end_layout
\begin_layout LyX-Code
@@ -731,11 +754,11 @@
\end_layout
\begin_layout Standard
-Once the problem has run, there will be a file called
+Once the problem has run, a file called
\family typewriter
dislocation_t0.vtk
\family default
-, which may be used with a number of visualization packages.
+ is produced which may be used with a number of visualization packages.
If the problem ran correctly, you should be able to generate a figure such
as
\begin_inset LatexCommand \ref{fig:twoquad4-disloc}
@@ -756,7 +779,7 @@
\begin_inset Graphics
filename figs/dislocation.jpg
lyxscale 50
- scale 50
+ scale 45
\end_inset
Modified: short/3D/PyLith/trunk/doc/userguide/tutorials/twotet4/twotet4.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/tutorials/twotet4/twotet4.lyx 2007-06-25 20:25:03 UTC (rev 7484)
+++ short/3D/PyLith/trunk/doc/userguide/tutorials/twotet4/twotet4.lyx 2007-06-25 20:52:16 UTC (rev 7485)
@@ -77,7 +77,7 @@
twotet4.mesh
\family default
, which is in PyLith mesh ASCII format.
- This file format is described in
+ This file format is described in Appendix
\begin_inset LatexCommand \ref{cha:File-Formats}
\end_inset
@@ -91,6 +91,8 @@
\end_layout
\begin_layout Standard
+\noindent
+\align center
\begin_inset Float figure
wide false
sideways false
@@ -138,7 +140,11 @@
.cfg
\family default
files, as described later, and placed on the command line.
- The settings contained in pylithapp.cfg for this problem consist of:
+ The settings contained in
+\family typewriter
+pylithapp.cfg
+\family default
+ for this problem consist of:
\end_layout
\begin_layout Description
@@ -158,7 +164,7 @@
\begin_layout Description
pylithapp.timedependent.materials Settings that control the material type,
- specify which material ID's are to be associated with a particular material
+ specify which material IDs are to be associated with a particular material
type, and give the name of the spatial database containing material parameters
for the mesh.
The quadrature information is also given.
@@ -172,10 +178,18 @@
\begin_layout Standard
All of the problems in this directory use the same material database, as
specified under
+\end_layout
+
+\begin_layout LyX-Code
+
\family typewriter
pylithapp.timedependent.materials
\family default
- in
+
+\end_layout
+
+\begin_layout Standard
+in
\family typewriter
pylithapp.cfg
\family default
@@ -203,7 +217,7 @@
\end_layout
\begin_layout Standard
-The first example problem is extension of the mesh along the diagonal extending
+The first example problem is extension of the mesh along the diagonal, extending
along the base of the pyramid between two opposing vertices.
Parameter settings that override or augment those in
\family typewriter
@@ -218,8 +232,8 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent We specify an implicit formulation for the problem
- and specify a container for boundary conditions (
+pylithapp.timedependent Specifies an implicit formulation for the problem
+ and specifies a container for boundary conditions (
\family typewriter
pylith.bc.BCSingle
\family default
@@ -227,14 +241,14 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent.bc.bc We define which degrees of freedom are being
- constrained (x and y), we give the label (defined in
+pylithapp.timedependent.bc.bc Defines which degrees of freedom are being constraine
+d (x and y), gives the label (defined in
\family typewriter
twotet4.mesh
\family default
-) defining the points we want, we assign a label to the boundary condition
- set, and we give the name of the spatial database defining the boundary
- conditions (
+) defining the points desired, assigns a label to the boundary condition
+ set, and gives the name of the spatial database defining the boundary condition
+s (
\family typewriter
axialdisp.spatialdb
\family default
@@ -242,7 +256,7 @@
\end_layout
\begin_layout Description
-pylithapp.problem.formulation.output.output We give the base filename for VTK
+pylithapp.problem.formulation.output.output Gives the base filename for VTK
output (
\family typewriter
axialdisp.vtk
@@ -260,7 +274,7 @@
axialdisp.cfg
\family default
.
- In this case, we give the desired displacement values at two points.
+ In this case, the desired displacement values are given at two points.
Since data is being specified at points (rather than being uniform over
the mesh, for example), the data dimension is one.
\end_layout
@@ -287,7 +301,7 @@
axialdisp.spatialdb
\family default
) provide a complete description of the problem, and we can then run this
- example by typing:
+ example by typing
\end_layout
\begin_layout LyX-Code
@@ -295,11 +309,11 @@
\end_layout
\begin_layout Standard
-Once the problem has run, there will be a file called
+Once the problem has run, a file called
\family typewriter
axialdisp_t0.vtk
\family default
-, which may be used with a number of visualization packages.
+ is produced which may be used with a number of visualization packages.
If the problem ran correctly, you should be able to generate a figure such
as
\begin_inset LatexCommand \ref{fig:twotet4-axial}
@@ -320,7 +334,7 @@
\begin_inset Graphics
filename figs/axialdisp.jpg
lyxscale 50
- scale 50
+ scale 45
\end_inset
@@ -362,18 +376,18 @@
\end_layout
\begin_layout Description
-pylithapp.journal.info We turn on journaling for 2D quadrature (used for 3D
+pylithapp.journal.info Turns on journaling for 2D quadrature (used for 3D
faults) and for cohesive kinematic faults.
\end_layout
\begin_layout Description
-pylithapp.timedependent We specify an implicit formulation for the problem,
- specify a container for boundary conditions (
+pylithapp.timedependent Specifies an implicit formulation for the problem,
+ specifies a container for boundary conditions (
\family typewriter
pylith.bc.BC
\family default
Single) that allows them to be given at a point (or set of points), and
- specify a container for a single fault (
+ specifies a container for a single fault (
\family typewriter
pylith.faults.SingleFault
\family default
@@ -381,14 +395,14 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent.bc.bc We define which degrees of freedom are being
- constrained (x, y, and z), we give the label (defined in
+pylithapp.timedependent.bc.bc Defines which degrees of freedom are being constraine
+d (x, y, and z), gives the label (defined in
\family typewriter
twotet4.mesh
\family default
-) defining the points we want, we assign a label to the boundary condition
- set, and we give the name of the spatial database defining the boundary
- conditions (
+) defining the points desired, assigns a label to the boundary condition
+ set, and gives the name of the spatial database defining the boundary condition
+s (
\family typewriter
dislocation_disp.spatialdb
\family default
@@ -396,20 +410,22 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent.interfaces We give the label (defined in
+pylithapp.timedependent.interfaces Gives the label (defined in
\family typewriter
twotet4.mesh
\family default
-) defining the points on the fault, provide quadrature information, and
- then give database names for material properties (needed for conditioning),
+) defining the points on the fault, provides quadrature information, and
+ then gives database names for material properties (needed for conditioning),
fault slip, fault slip rate, and fault slip time.
\end_layout
\begin_layout Description
-pylithapp.problem.formulation.output.output We give the base filename for VTK
+pylithapp.problem.formulation.output.output Gives the base filename for VTK
output (
\family typewriter
-dislocation.vtk
+dislocation
+\newline
+.vtk
\family default
).
\end_layout
@@ -421,7 +437,9 @@
\family default
, as specified in
\family typewriter
-dislocation.cfg
+dislocation
+\newline
+.cfg
\family default
.
In this case, we give the desired displacement values at a single point.
@@ -477,6 +495,7 @@
\family default
) along with the problem-specific files (
\family typewriter
+\size small
dislocation.cfg
\family default
,
@@ -495,8 +514,9 @@
\family typewriter
dislocation_sliptime.spatialdb
\family default
+\size default
) provide a complete description of the problem, and we can then run this
- example by typing:
+ example by typing
\end_layout
\begin_layout LyX-Code
@@ -504,14 +524,14 @@
\end_layout
\begin_layout Standard
-Once the problem has run, there will be a file called
+Once the problem has run, a file called
\family typewriter
dislocation_t0.vtk
\family default
-, which may be used with a number of visualization packages.
+ is produced which may be used with a number of visualization packages.
If the problem ran correctly, you should be able to generate a figure such
as
-\begin_inset LatexCommand \ref{fig:twotet4-disloc}
+\begin_inset LatexCommand \vref{fig:twotet4-disloc}
\end_inset
@@ -529,7 +549,7 @@
\begin_inset Graphics
filename figs/dislocation.jpg
lyxscale 50
- scale 50
+ scale 45
\end_inset
Modified: short/3D/PyLith/trunk/doc/userguide/tutorials/twotri3/twotri3.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/tutorials/twotri3/twotri3.lyx 2007-06-25 20:25:03 UTC (rev 7484)
+++ short/3D/PyLith/trunk/doc/userguide/tutorials/twotri3/twotri3.lyx 2007-06-25 20:52:16 UTC (rev 7485)
@@ -1,4 +1,4 @@
-#LyX 1.4.4 created this file. For more info see http://www.lyx.org/
+#LyX 1.4.3 created this file. For more info see http://www.lyx.org/
\lyxformat 245
\begin_document
\begin_header
@@ -21,7 +21,7 @@
\leftmargin 1in
\topmargin 1in
\rightmargin 1in
-\bottommargin 2in
+\bottommargin 1in
\secnumdepth 3
\tocdepth 3
\paragraph_separation indent
@@ -73,11 +73,11 @@
\end_inset
).
- The mesh geometry and topology is described in the file
+ The mesh geometry and topology are described in the file
\family typewriter
twotri3.mesh
\family default
-, which is in PyLith Mesh ASCII format.
+, which is in PyLith mesh ASCII format.
This file format is described in Appendix
\begin_inset LatexCommand \ref{cha:File-Formats}
@@ -159,7 +159,7 @@
\begin_layout Description
pylithapp.timedependent.materials Settings that control the material type,
- specify which material ID's are to be associated with a particular material
+ specify which material IDs are to be associated with a particular material
type, and give the name of the spatial database containing material parameters
for the mesh.
The quadrature information is also given.
@@ -173,10 +173,18 @@
\begin_layout Standard
All of the problems in this directory use the same material database, as
specified under
+\end_layout
+
+\begin_layout LyX-Code
+
\family typewriter
pylithapp.timedependent.materials
\family default
- in
+
+\end_layout
+
+\begin_layout Standard
+in
\family typewriter
pylithapp.cfg
\family default
@@ -219,8 +227,8 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent We specify an implicit formulation for the problem
- and specify a container for boundary conditions (
+pylithapp.timedependent Specifies an implicit formulation for the problem
+ and specifies a container for boundary conditions (
\family typewriter
pylith.bc.BCSingle
\family default
@@ -228,14 +236,14 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent.bc.bc We define which degrees of freedom are being
- constrained (x and y), we give the label (defined in
+pylithapp.timedependent.bc.bc Defines which degrees of freedom are being constraine
+d (x and y), gives the label (defined in
\family typewriter
twotri3.mesh
\family default
-) defining the points we want, we assign a label to the boundary condition
- set, and we give the name of the spatial database defining the boundary
- conditions (
+) defining the points desired, assigns a label to the boundary condition
+ set, and gives the name of the spatial database defining the boundary condition
+s (
\family typewriter
axialdisp.spatialdb
\family default
@@ -243,7 +251,7 @@
\end_layout
\begin_layout Description
-pylithapp.problem.formulation.output.output We give the base filename for VTK
+pylithapp.problem.formulation.output.output Gives the base filename for VTK
output (
\family typewriter
axialdisp.vtk
@@ -262,7 +270,7 @@
\family default
.
The format of all spatial database files is similar.
- In this case, we give the desired displacement values at two points (lower
+ In this case, the desired displacement values are given at two points (lower
left and upper right).
Since data is being specified at points (rather than being uniform over
the mesh, for example), the data dimension is one.
@@ -290,7 +298,7 @@
axialdisp.spatialdb
\family default
) provide a complete description of the problem, and we can then run this
- example by typing:
+ example by typing
\end_layout
\begin_layout LyX-Code
@@ -298,14 +306,14 @@
\end_layout
\begin_layout Standard
-Once the problem has run, there will be a file called
+Once the problem has run, a file called
\family typewriter
axialdisp_t0.vtk
\family default
-, which may be used with a number of visualization packages.
+ is produced which may be used with a number of visualization packages.
If the problem ran correctly, you should be able to generate a figure such
as
-\begin_inset LatexCommand \ref{fig:twotri3-axial}
+\begin_inset LatexCommand \vref{fig:twotri3-axial}
\end_inset
@@ -313,10 +321,12 @@
\end_layout
\begin_layout Standard
+\noindent
+\align center
\begin_inset Float figure
wide false
sideways false
-status open
+status collapsed
\begin_layout Standard
\align center
@@ -364,8 +374,8 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent We specify an implicit formulation for the problem
- and specify a container for boundary conditions (
+pylithapp.timedependent Specifies an implicit formulation for the problem
+ and specifies a container for boundary conditions (
\family typewriter
pylith.bc.BCFourSides
\family default
@@ -373,7 +383,7 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent.bc.x_neg We specify the boundary conditions for the
+pylithapp.timedependent.bc.x_neg Specifies the boundary conditions for the
left side of the mesh, defining which degrees of freedom are being constrained
(x and y), giving the label (
\family typewriter
@@ -383,7 +393,7 @@
\family typewriter
twotri3.mesh
\family default
-) defining the points we want, assigning a label to the boundary condition
+) defining the points desired, assigning a label to the boundary condition
set, and giving the name of the spatial database defining the boundary
conditions (
\family typewriter
@@ -393,7 +403,7 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent.bc.x_pos We specify the boundary conditions for the
+pylithapp.timedependent.bc.x_pos Specifies the boundary conditions for the
left side of the mesh, defining which degrees of freedom are being constrained
(y only), giving the label (
\family typewriter
@@ -403,7 +413,7 @@
\family typewriter
twotri3.mesh
\family default
-) defining the points we want, assigning a label to the boundary condition
+) defining the points desired, assigning a label to the boundary condition
set, and giving the name of the spatial database defining the boundary
conditions (
\family typewriter
@@ -413,7 +423,7 @@
\end_layout
\begin_layout Description
-pylithapp.problem.formulation.output.output We give the base filename for VTK
+pylithapp.problem.formulation.output.output Gives the base filename for VTK
output (
\family typewriter
sheardisp.vtk
@@ -431,8 +441,8 @@
sheardisp.cfg
\family default
.
- In this case, we give the desired displacement values at two points, correspond
-ing to the two edges we want to constrain.
+ In this case, the desired displacement values are given at two points,
+ corresponding to the two edges we want to constrain.
Since data is being specified at points (rather than being uniform over
the mesh, for example), the data dimension is one.
\end_layout
@@ -459,7 +469,7 @@
sheardisp.spatialdb
\family default
) provide a complete description of the problem, and we can then run this
- example by typing:
+ example by typing
\end_layout
\begin_layout LyX-Code
@@ -467,14 +477,14 @@
\end_layout
\begin_layout Standard
-Once the problem has run, there will be a file called
+Once the problem has run, a file called
\family typewriter
sheardisp_t0.vtk
\family default
-, which may be used with a number of visualization packages.
+ is produced which may be used with a number of visualization packages.
If the problem ran correctly, you should be able to generate a figure such
as
-\begin_inset LatexCommand \ref{fig:twotri-shear}
+\begin_inset LatexCommand \vref{fig:twotri-shear}
\end_inset
@@ -482,10 +492,12 @@
\end_layout
\begin_layout Standard
+\noindent
+\align center
\begin_inset Float figure
wide false
sideways false
-status open
+status collapsed
\begin_layout Standard
\align center
@@ -535,18 +547,18 @@
\end_layout
\begin_layout Description
-pylithapp.journal.info We turn on journaling for 1D quadrature (used for 2D
+pylithapp.journal.info Turns on journaling for 1D quadrature (used for 2D
faults) and for cohesive kinematic faults.
\end_layout
\begin_layout Description
-pylithapp.timedependent We specify an implicit formulation for the problem,
- specify a container for boundary conditions (
+pylithapp.timedependent Specifies an implicit formulation for the problem,
+ specifies a container for boundary conditions (
\family typewriter
pylith.bc.BC
\family default
Single) that allows them to be given at a point (or set of points), and
- specify a container for a single fault (
+ specifies a container for a single fault (
\family typewriter
pylith.faults.SingleFault
\family default
@@ -554,35 +566,39 @@
\end_layout
\begin_layout Description
-pylithapp.timedependent.bc.bc We define which degrees of freedom are being
- constrained (x and y), we give the label (defined in
+pylithapp.timedependent.bc.bc Defines which degrees of freedom are being constraine
+d (x and y), gives the label (defined in
\family typewriter
twotri3.mesh
\family default
-) defining the points we want, we assign a label to the boundary condition
- set, and we give the name of the spatial database defining the boundary
- conditions (
+) defining the points desired, assigns a label to the boundary condition
+ set, and gives the name of the spatial database defining the boundary condition
+s (
\family typewriter
-dislocation_disp.spatialdb
+dislocation_disp
+\newline
+.spatialdb
\family default
).
\end_layout
\begin_layout Description
-pylithapp.timedependent.interfaces We give the label (defined in
+pylithapp.timedependent.interfaces Gives the label (defined in
\family typewriter
twotri3.mesh
\family default
-) defining the points on the fault, provide quadrature information, and
- then give database names for material properties (needed for conditioning),
+) defining the points on the fault, provides quadrature information, and
+ then gives database names for material properties (needed for conditioning),
fault slip, fault slip rate, and fault slip time.
\end_layout
\begin_layout Description
-pylithapp.problem.formulation.output.output We give the base filename for VTK
+pylithapp.problem.formulation.output.output Gives the base filename for VTK
output (
\family typewriter
-dislocation.vtk
+dislocation
+\newline
+.vtk
\family default
).
\end_layout
@@ -594,10 +610,12 @@
\family default
, as specified in
\family typewriter
-dislocation.cfg
+dislocation
+\newline
+.cfg
\family default
.
- In this case, we give the desired displacement values at a single point.
+ In this case, the desired displacement values are given at a single point.
Since data is being specified uniformly for all the labeled points, the
data dimension is 0.
\end_layout
@@ -650,6 +668,7 @@
\family default
) along with the problem-specific files (
\family typewriter
+\size small
dislocation.cfg
\family default
,
@@ -668,8 +687,9 @@
\family typewriter
dislocation_sliptime.spatialdb
\family default
+\size default
) provide a complete description of the problem, and we can then run this
- example by typing:
+ example by typing
\end_layout
\begin_layout LyX-Code
@@ -677,14 +697,14 @@
\end_layout
\begin_layout Standard
-Once the problem has run, there will be a file called
+Once the problem has run, a file called
\family typewriter
dislocation_t0.vtk
\family default
-, which may be used with a number of visualization packages.
+ is produced which may be used with a number of visualization packages.
If the problem ran correctly, you should be able to generate a figure such
as
-\begin_inset LatexCommand \ref{fig:twotri-disloc}
+\begin_inset LatexCommand \vref{fig:twotri-disloc}
\end_inset
@@ -692,10 +712,12 @@
\end_layout
\begin_layout Standard
+\noindent
+\align center
\begin_inset Float figure
wide false
sideways false
-status open
+status collapsed
\begin_layout Standard
\align center
Modified: short/3D/PyLith/trunk/doc/userguide/userguide.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/userguide.lyx 2007-06-25 20:25:03 UTC (rev 7484)
+++ short/3D/PyLith/trunk/doc/userguide/userguide.lyx 2007-06-25 20:52:16 UTC (rev 7485)
@@ -41,6 +41,8 @@
\begin_body
\begin_layout Standard
+\noindent
+\align center
\begin_inset Float figure
placement H
wide false
@@ -48,6 +50,8 @@
status open
\begin_layout Standard
+\noindent
+\align center
\begin_inset Graphics
filename pylith_cover.pdf
width 75page%
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