[cig-commits] r11448 - in short/3D/PyLith/trunk/doc/userguide: . analyticalsolns boundaryconditions install materials/figs runpylith tutorials/twohex8 tutorials/twohex8/figs tutorials/twotet4-geoproj tutorials/twotri3
sue at geodynamics.org
sue at geodynamics.org
Fri Mar 14 15:27:25 PDT 2008
Author: sue
Date: 2008-03-14 15:27:24 -0700 (Fri, 14 Mar 2008)
New Revision: 11448
Modified:
short/3D/PyLith/trunk/doc/userguide/analyticalsolns/analyticalsolns.lyx
short/3D/PyLith/trunk/doc/userguide/boundaryconditions/boundaryconditions.lyx
short/3D/PyLith/trunk/doc/userguide/install/install.lyx
short/3D/PyLith/trunk/doc/userguide/materials/figs/pylith-materials.ai
short/3D/PyLith/trunk/doc/userguide/preface.lyx
short/3D/PyLith/trunk/doc/userguide/pylith_cover.pdf
short/3D/PyLith/trunk/doc/userguide/pylith_cover.psd
short/3D/PyLith/trunk/doc/userguide/runpylith/runpylith.lyx
short/3D/PyLith/trunk/doc/userguide/tutorials/twohex8/figs/axialdisp.eps
short/3D/PyLith/trunk/doc/userguide/tutorials/twohex8/figs/dislocation.eps
short/3D/PyLith/trunk/doc/userguide/tutorials/twohex8/figs/sheardisp.eps
short/3D/PyLith/trunk/doc/userguide/tutorials/twohex8/figs/twohex8-mesh.eps
short/3D/PyLith/trunk/doc/userguide/tutorials/twohex8/figs/twohex8-mesh.fig.bak
short/3D/PyLith/trunk/doc/userguide/tutorials/twohex8/figs/twotet4-mesh.eps
short/3D/PyLith/trunk/doc/userguide/tutorials/twohex8/twohex8.lyx
short/3D/PyLith/trunk/doc/userguide/tutorials/twotet4-geoproj/twotet4-geoproj.lyx
short/3D/PyLith/trunk/doc/userguide/tutorials/twotri3/twotri3.lyx
short/3D/PyLith/trunk/doc/userguide/userguide.lyx
Log:
initial edits noted from review of cig-commits output
Modified: short/3D/PyLith/trunk/doc/userguide/analyticalsolns/analyticalsolns.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/analyticalsolns/analyticalsolns.lyx 2008-03-14 22:20:27 UTC (rev 11447)
+++ short/3D/PyLith/trunk/doc/userguide/analyticalsolns/analyticalsolns.lyx 2008-03-14 22:27:24 UTC (rev 11448)
@@ -1,4 +1,4 @@
-#LyX 1.5.3 created this file. For more info see http://www.lyx.org/
+#LyX 1.5.1 created this file. For more info see http://www.lyx.org/
\lyxformat 276
\begin_document
\begin_header
@@ -88,7 +88,7 @@
, and we restrict ourselves to two-dimensional problems.
Any problem in elastostatics must satisfy the equilibrium equations
\begin_inset Formula \begin{gather}
-\frac{\partial\sigma_{xx}}{\partial x}+\frac{\partial\sigma_{xy}}{\partial y}+X=0\\
+\frac{\partial\sigma_{xx}}{\partial x}+\frac{\partial\sigma_{xy}}{\partial y}+X=0\label{eq:1}\\
\frac{\partial\sigma_{yy}}{\partial y}+\frac{\partial\sigma_{xy}}{\partial x}+Y=0,\nonumber \end{gather}
\end_inset
@@ -109,7 +109,7 @@
\shape italic
y
\shape default
--directions, respectively, and the stress components are given by
+ directions, respectively, and the stress components are given by
\begin_inset Formula $\sigma$
\end_inset
@@ -128,7 +128,7 @@
Finally, the solution must satisfy the conditions of compatibility, which
may be expressed as:
\begin_inset Formula \begin{equation}
-\left(\frac{\partial^{2}}{\partial x^{2}}+\frac{\partial^{2}}{\partial y^{2}}\right)\left(\sigma_{xx}+\sigma_{yy}\right)=0.\end{equation}
+\left(\frac{\partial^{2}}{\partial x^{2}}+\frac{\partial^{2}}{\partial y^{2}}\right)\left(\sigma_{xx}+\sigma_{yy}\right)=0.\label{eq:2}\end{equation}
\end_inset
@@ -137,7 +137,13 @@
\end_layout
\begin_layout Standard
-Equations (1) may be satisfied by taking any function
+Equations
+\begin_inset LatexCommand ref
+reference "eq:1"
+
+\end_inset
+
+ may be satisfied by taking any function
\begin_inset Formula $\phi$
\end_inset
@@ -151,19 +157,30 @@
\shape default
, and letting the stress components be given by the following expressions:
\begin_inset Formula \begin{equation}
-\sigma_{xx}=\frac{\partial^{2}\phi}{\partial y^{2}},\;\sigma_{yy}=\frac{\partial^{2}\phi}{\partial x^{2}},\;\sigma_{xy}=-\frac{\partial^{2}\phi}{\partial x\partial y}.\end{equation}
+\sigma_{xx}=\frac{\partial^{2}\phi}{\partial y^{2}},\;\sigma_{yy}=\frac{\partial^{2}\phi}{\partial x^{2}},\;\sigma_{xy}=-\frac{\partial^{2}\phi}{\partial x\partial y}.\label{eq:3}\end{equation}
\end_inset
The solution must also satisfy the compatibility equations.
- Substituting equations (3) into equation (2), we find that the stress function
-
+ Substituting Equations
+\begin_inset LatexCommand ref
+reference "eq:3"
+
+\end_inset
+
+ into Equation
+\begin_inset LatexCommand ref
+reference "eq:2"
+
+\end_inset
+
+, we find that the stress function
\begin_inset Formula $\phi$
\end_inset
must satisfy
\begin_inset Formula \begin{equation}
-\frac{\partial^{4}\phi}{\partial x^{4}}+2\frac{\partial^{4}\phi}{\partial x^{2}\partial y^{2}}+\frac{\partial^{4}\phi}{\partial y^{4}}=0.\end{equation}
+\frac{\partial^{4}\phi}{\partial x^{4}}+2\frac{\partial^{4}\phi}{\partial x^{2}\partial y^{2}}+\frac{\partial^{4}\phi}{\partial y^{4}}=0.\label{eq:4}\end{equation}
\end_inset
@@ -181,9 +198,21 @@
y
\shape default
of second degree or higher.
- Any polynomial of second or third degree will satisfy equation (4).
- For polynomials of higher degree, they must be substituted into equation
- (4) to determine what restrictions must be placed on the solution.
+ Any polynomial of second or third degree will satisfy Equation
+\begin_inset LatexCommand ref
+reference "eq:4"
+
+\end_inset
+
+.
+ For polynomials of higher degree, they must be substituted into Equation
+
+\begin_inset LatexCommand ref
+reference "eq:4"
+
+\end_inset
+
+ to determine what restrictions must be placed on the solution.
\end_layout
\begin_layout Subsection
@@ -219,19 +248,19 @@
Since the tractions are constant, we assume a second degree polynomial
for the stress function:
\begin_inset Formula \begin{equation}
-\phi_{2}=\frac{a_{2}}{2}x^{2}+b_{2}xy+\frac{c_{2}}{2}y^{2}.\end{equation}
+\phi_{2}=\frac{a_{2}}{2}x^{2}+b_{2}xy+\frac{c_{2}}{2}y^{2}.\label{eq:5}\end{equation}
\end_inset
This yields the following expressions for the stresses:
\begin_inset Formula \begin{equation}
-\sigma_{xx}=\frac{\partial^{2}\phi_{2}}{\partial y^{2}}=c_{2}=N,\;\sigma_{yy}=a_{2}=0,\;\sigma_{xy}=-b_{2}=0.\end{equation}
+\sigma_{xx}=\frac{\partial^{2}\phi_{2}}{\partial y^{2}}=c_{2}=N,\;\sigma_{yy}=a_{2}=0,\;\sigma_{xy}=-b_{2}=0.\label{eq:6}\end{equation}
\end_inset
From Hooke's law, we have:
\begin_inset Formula \begin{equation}
-\epsilon_{xx}=\frac{\partial u}{\partial x}=\frac{\left(1-\nu^{2}\right)N}{E},\;\epsilon_{yy}=\frac{\partial v}{\partial y}=\frac{-\nu\left(1+\nu\right)N}{E},\;\epsilon_{xy}=\frac{1}{2}\left(\frac{\partial v}{\partial x}+\frac{\partial u}{\partial y}\right)=0.\end{equation}
+\epsilon_{xx}=\frac{\partial u}{\partial x}=\frac{\left(1-\nu^{2}\right)N}{E},\;\epsilon_{yy}=\frac{\partial v}{\partial y}=\frac{-\nu\left(1+\nu\right)N}{E},\;\epsilon_{xy}=\frac{1}{2}\left(\frac{\partial v}{\partial x}+\frac{\partial u}{\partial y}\right)=0.\label{eq:7}\end{equation}
\end_inset
@@ -239,17 +268,22 @@
\end_layout
\begin_layout Standard
-To obtain the displacements, we must integrate equation (7) and make use
- of the displacement boundary conditions.
+To obtain the displacements, we must integrate Equation
+\begin_inset LatexCommand ref
+reference "eq:7"
+
+\end_inset
+
+ and make use of the displacement boundary conditions.
Integrating the first two of these, we obtain
\begin_inset Formula \begin{equation}
-u=\frac{\left(1-\nu^{2}\right)Nx}{E}+f\left(y\right),\; v=\frac{-\nu\left(1+\nu\right)Ny}{E}+f\left(x\right).\end{equation}
+u=\frac{\left(1-\nu^{2}\right)Nx}{E}+f\left(y\right),\; v=\frac{-\nu\left(1+\nu\right)Ny}{E}+f\left(x\right).\label{eq:8}\end{equation}
\end_inset
Substituting these into the third expression, we obtain
\begin_inset Formula \begin{equation}
-\frac{\partial f\left(x\right)}{\partial x}=-\frac{\partial f\left(y\right)}{\partial y},\end{equation}
+\frac{\partial f\left(x\right)}{\partial x}=-\frac{\partial f\left(y\right)}{\partial y},\label{eq:9}\end{equation}
\end_inset
@@ -275,7 +309,7 @@
Doing this, we obtain the following expressions for the displacement components
:
\begin_inset Formula \begin{equation}
-u=\frac{\left(1-\nu^{2}\right)N}{E}\left(x-x_{0}\right),\; v=\frac{\nu\left(1+\nu\right)N}{E}\left(y_{0}-y\right).\end{equation}
+u=\frac{\left(1-\nu^{2}\right)N}{E}\left(x-x_{0}\right),\; v=\frac{\nu\left(1+\nu\right)N}{E}\left(y_{0}-y\right).\label{eq:10}\end{equation}
\end_inset
@@ -283,6 +317,8 @@
\end_layout
\begin_layout Standard
+\noindent
+\align center
\begin_inset Float figure
wide false
sideways false
@@ -310,6 +346,8 @@
\end_layout
\begin_layout Standard
+\noindent
+\align center
\begin_inset Graphics
filename figs/consttract.eps
Modified: short/3D/PyLith/trunk/doc/userguide/boundaryconditions/boundaryconditions.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/boundaryconditions/boundaryconditions.lyx 2008-03-14 22:20:27 UTC (rev 11447)
+++ short/3D/PyLith/trunk/doc/userguide/boundaryconditions/boundaryconditions.lyx 2008-03-14 22:27:24 UTC (rev 11448)
@@ -1,4 +1,4 @@
-#LyX 1.5.3 created this file. For more info see http://www.lyx.org/
+#LyX 1.5.1 created this file. For more info see http://www.lyx.org/
\lyxformat 276
\begin_document
\begin_header
@@ -473,7 +473,7 @@
\begin_layout Description
quadrature The quadrature object to be used for numerical integration.
- Since we are integrating over a surface that is one dimenion lower than
+ Since we are integrating over a surface that is one dimension lower than
the problem domain, this would typically be set to something like
\family typewriter
quadrature2din3d
Modified: short/3D/PyLith/trunk/doc/userguide/install/install.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/install/install.lyx 2008-03-14 22:20:27 UTC (rev 11447)
+++ short/3D/PyLith/trunk/doc/userguide/install/install.lyx 2008-03-14 22:27:24 UTC (rev 11448)
@@ -1,4 +1,4 @@
-#LyX 1.5.4 created this file. For more info see http://www.lyx.org/
+#LyX 1.5.1 created this file. For more info see http://www.lyx.org/
\lyxformat 276
\begin_document
\begin_header
@@ -129,7 +129,7 @@
Binary executables are available for Linux, Mac OS X (Power PC and Intel),
and Windows from the
\begin_inset LatexCommand htmlurl
-name "CIG website"
+name "PyLith web page"
target "geodynamics.org/cig/software/packages/short/pylith/"
\end_inset
@@ -159,14 +159,14 @@
\end_layout
\begin_layout Itemize
-Download the
+Download the Linux tarball from the
\begin_inset LatexCommand htmlurl
-name "Linux tarball"
+name "PyLith web page"
target "geodynamics.org/cig/software/packages/short/pylith/"
\end_inset
- and save it to the desired location, e.g.,
+, and save it to the desired location, e.g.,
\family typewriter
$HOME/pylith
\family default
@@ -211,9 +211,9 @@
\end_layout
\begin_layout Itemize
-Download the
+Download the Darwin tarball from the
\begin_inset LatexCommand htmlurl
-name "Darwin tarball"
+name "PyLith web page"
target "geodynamics.org/cig/software/packages/short/pylith/"
\end_inset
@@ -247,9 +247,9 @@
\end_layout
\begin_layout Itemize
-Download the
+Download the Windows installer from the
\begin_inset LatexCommand htmlurl
-name "Windows installer"
+name "PyLith web page"
target "geodynamics.org/cig/software/packages/short/pylith/"
\end_inset
@@ -262,14 +262,20 @@
\end_layout
\begin_layout Standard
-PyLith 1.1 depends on a number of other packages (see Figurepylith-dependencies).
+PyLith 1.1 depends on a number of other packages (see Figure
+\begin_inset LatexCommand ref
+reference "fig:pylith-dependencies"
+
+\end_inset
+
+).
This complicates building the software from the source code.
In many cases some of the packages required by PyLith are available as
binary packages.
On the one hand, using these packages removes the burden of configuring,
- building, and installing these packages, but it can come with its own host
- of complications if consistent compiler and configuration settings are
- not used across all of the packages on which PyLith depends.
+ building, and installing these packages, but that can come with its own
+ host of complications if consistent compiler and configuration settings
+ are not used across all of the packages on which PyLith depends.
This is usually not an issue with Linux distributions, such as Fedora,
Ubuntu, and Debian that have good quality control; it can be an issue with
Darwin package managers, such as Fink, where there is limited enforcement
@@ -280,20 +286,25 @@
\end_layout
\begin_layout Standard
-Detailed installation instructions for building PyLith using the SVN source
+Detailed installation instructions for building PyLith using the SVN source
repository are available for several platforms.
- The instructions can be accessed via the web interface to the source
- repository (http://www.geodynamics.org/wsvn/cig/short/3D/PyLith/trunk/doc/instal
-l/).
- Even though using the software repositories is recommended only for experienc
-ed users, less experienced users will find the platform specific instructions
+ The instructions can be accessed via the
+\begin_inset LatexCommand htmlurl
+name "web interface into the PyLith source repository"
+target "geodynamics.org/wsvn/cig/short/3D/PyLith/trunk/doc/install/"
+
+\end_inset
+
+.
+ Even though using the software repositories is recommended only for experienced
+ users, less experienced users will find the platform- specific instructions
useful.
- For example, the platform specific instructions include a list of binary
- packages/distributions that can be used, eliminating the need to compile
- those packages from source.
- Thus, less experienced users should follow the platform specific instructions
- but replace checking out the source code from the repository (applies
- to PETSc and CIG code only) with downloading the prepackaged source code.
+ For example, the platform-specific instructions include a list of binary
+ packages/distributions that can be used, eliminating the need to compile
+ those packages from source.
+ Thus, less experienced users should follow the platform-specific instructions,
+ but replace checking out the source code from the repository (applies to
+ PETSc and CIG code only) with downloading the prepackaged source code.
\end_layout
\begin_layout Subsection
@@ -701,10 +712,11 @@
\end_layout
\begin_layout Standard
-For general information about the development version of PETSc, visit
+For general information about the development version of PETSc, visit the
+
\begin_inset LatexCommand htmlurl
-name "the PETSc Developers Site"
-target "http://www-unix.mcs.anl.gov/petsc/petsc-as/developers/"
+name "PETSc Developers Site"
+target "www-unix.mcs.anl.gov/petsc/petsc-as/developers"
\end_inset
@@ -759,10 +771,10 @@
\end_layout
\begin_layout Standard
-For detailed information on installing PETSc, see
+For detailed information on installing PETSc, see the
\begin_inset LatexCommand htmlurl
-name "the PETSc Installation Docs"
-target "http://www-unix.mcs.anl.gov/petsc/petsc-as/documentation/installation.html"
+name "PETSc Installation Docs"
+target "www-unix.mcs.anl.gov/petsc/petsc-as/documentation/installation.html"
\end_inset
@@ -787,8 +799,8 @@
\family default
from the
\begin_inset LatexCommand htmlurl
-name "the PETSc Developers Site"
-target "http://www-unix.mcs.anl.gov/petsc/petsc-as/developers/"
+name "PETSc Developers Site"
+target "www-unix.mcs.anl.gov/petsc/petsc-as/developers"
\end_inset
@@ -1370,8 +1382,8 @@
As with many other packages, to install nemesis, first, download the source
package available at the
\begin_inset LatexCommand htmlurl
-name "Geodynamics Software Packages web page"
-target "www.geodynamics.org/cig/software/packages/short/pylith"
+name "PyLith web page"
+target "geodynamics.org/cig/software/packages/short/pylith"
\end_inset
@@ -1393,28 +1405,12 @@
\begin_layout Standard
Download Nemesis from the
\begin_inset LatexCommand htmlurl
-name "Geodynamics website"
-target "www.geodynamics.org"
+name "PyLith web page"
+target "geodynamics.org/cig/software/packages/short/pylith"
\end_inset
-.
- Click the
-\family sans
-software
-\family default
- tab at the top of the page.
- Then click
-\family sans
-Software Packages
-\family default
-, then
-\family sans
-Short-Term Crustal Dynamics
-\family default
-.
- Once you click the PyLith link, download the source archive and unpack
- it using the
+ and unpack it using the
\family typewriter
tar
\family default
@@ -1569,7 +1565,7 @@
package available at the
\begin_inset LatexCommand htmlurl
name "PROJ.4 web page"
-target "http://www.remotesensing.org/proj/"
+target "www.remotesensing.org/proj"
\end_inset
@@ -1594,7 +1590,7 @@
Download Proj.4 from the
\begin_inset LatexCommand htmlurl
name "Proj.4 website"
-target "http://www.remotesensing.org/proj/"
+target "www.remotesensing.org/proj"
\end_inset
@@ -1727,7 +1723,7 @@
First, download the source package available at the
\begin_inset LatexCommand htmlurl
name "SciPy.org web page"
-target "http://www.scipy.org/Download/"
+target "www.scipy.org/Download"
\end_inset
@@ -1743,7 +1739,7 @@
Download Numpy from the
\begin_inset LatexCommand htmlurl
name "SciPy website"
-target "http://www.scipy.org/"
+target "www.scipy.org"
\end_inset
@@ -1834,7 +1830,7 @@
First, download the source package available at the
\begin_inset LatexCommand htmlurl
name "FENICS web page"
-target "http://www.fenics.org/wiki/Download/"
+target "www.fenics.org/wiki/Download"
\end_inset
@@ -1850,7 +1846,7 @@
Download FIAT from the
\begin_inset LatexCommand htmlurl
name "FENICS website"
-target "http://www.fenics.org/"
+target "www.fenics.org"
\end_inset
@@ -1941,7 +1937,7 @@
First, download the source package available at the
\begin_inset LatexCommand htmlurl
name "Pyrex web page"
-target "http://www.cosc.canterbury.ac.nz/greg.ewing/python/Pyrex/"
+target "www.cosc.canterbury.ac.nz/greg.ewing/python/Pyrex"
\end_inset
@@ -1958,7 +1954,7 @@
Download Pyrex 0.9.5.1 from the
\begin_inset LatexCommand htmlurl
name "Pyrex website"
-target "http://www.cosc.canterbury.ac.nz/greg.ewing/python/Pyrex/"
+target "www.cosc.canterbury.ac.nz/greg.ewing/python/Pyrex"
\end_inset
@@ -2051,8 +2047,8 @@
simple.
First, download the source package available at the
\begin_inset LatexCommand htmlurl
-name "Geodynamics Software Packages web page"
-target "www.geodynamics.org/cig/software/packages/short/pylith"
+name "PyLith web page"
+target "geodynamics.org/cig/software/packages/short/pylith"
\end_inset
@@ -2067,28 +2063,12 @@
\begin_layout Standard
Download Pyrexembed from the
\begin_inset LatexCommand htmlurl
-name "Geodynamics website"
-target "www.geodynamics.org"
+name "PyLith web page"
+target "geodynamics.org/cig/software/packages/short/pylith"
\end_inset
-.
- Click the
-\family sans
-software
-\family default
- tab at the top of the page.
- Then click
-\family sans
-Software Packages
-\family default
-, then
-\family sans
-Short-Term Crustal Dynamics
-\family default
-.
- Once you click the PyLith link, download the source archive and unpack
- it using the
+ and unpack it using the
\family typewriter
tar
\family default
@@ -2172,8 +2152,8 @@
As with many other packages, to install spatialdata, first, download the
source package available at the
\begin_inset LatexCommand htmlurl
-name "Geodynamics Software Packages web page"
-target "www.geodynamics.org/cig/software/packages/short/pylith"
+name "PyLith web page"
+target "geodynamics.org/cig/software/packages/short/pylith"
\end_inset
@@ -2194,28 +2174,12 @@
\begin_layout Standard
Download Nemesis from the
\begin_inset LatexCommand htmlurl
-name "Geodynamics website"
-target "www.geodynamics.org"
+name "PyLith web page"
+target "geodynamics.org/cig/software/packages/short/pylith"
\end_inset
-.
- Click the
-\family sans
-software
-\family default
- tab at the top of the page.
- Then click
-\family sans
-Software Packages
-\family default
-, then
-\family sans
-Short-Term Crustal Dynamics
-\family default
-.
- Once you click the PyLith link, download the source archive and unpack
- it using the
+ and unpack it using the
\family typewriter
tar
\family default
@@ -2306,8 +2270,15 @@
to configure the package for your system
\family typewriter
.
- Note that PyLith requires spatialdata to be configured with the--enable-pythia
- flag.
+
+\family default
+Note that PyLith requires spatialdata to be configured with the
+\family typewriter
+--enable-pythia
+\family default
+ flag
+\family typewriter
+.
\newline
\newline
@@ -2377,8 +2348,8 @@
open source software packages.
First, download the source package available at the
\begin_inset LatexCommand htmlurl
-name "Geodynamics Software Packages web page"
-target "www.geodynamics.org/cig/software/packages"
+name "PyLith web page"
+target "geodynamics.org/cig/software/packages/short/pylith"
\end_inset
@@ -2400,28 +2371,12 @@
\begin_layout Standard
Download PyLith from the
\begin_inset LatexCommand htmlurl
-name "Geodynamics website"
-target "www.geodynamics.org"
+name "PyLith web page"
+target "geodynamics.org/cig/software/packages/short/pylith"
\end_inset
-.
- Click the
-\family sans
-software
-\family default
- tab at the top of the page.
- Then click
-\family sans
-Software Packages
-\family default
-, then
-\family sans
-Short-Term Crustal Dynamics
-\family default
-.
- Once you click the PyLith link, download the source archive and unpack
- it using the
+ and unpack it using the
\family typewriter
tar
\family default
@@ -3460,7 +3415,7 @@
\begin_inset LatexCommand htmlurl
name "Pythia page"
-target "www.geodynamics.org/cig/software/packages/cs/pythia"
+target "geodynamics.org/cig/software/packages/cs/pythia"
\end_inset
@@ -3479,8 +3434,8 @@
\begin_layout Standard
The PyLith source code is available via the
\begin_inset LatexCommand htmlurl
-name "Geodynamics Subversion Repository"
-target "www.geodynamics.org/cig/software/Repository/"
+name "CIG Subversion Repository"
+target "geodynamics.org/cig/software/Repository/"
\end_inset
@@ -3576,10 +3531,10 @@
To check out the PETSc source, you must have Mercurial 0.9 or later installed.
You will likely have to build Mercurial from source, but this is a very
easy task that takes only a couple of minutes.
- To learn how to download and install Mercurial, visit
+ To learn how to download and install Mercurial, visit the
\begin_inset LatexCommand htmlurl
-name "the Mercurial web site"
-target "http://www.selenic.com/mercurial/"
+name "Mercurial web site"
+target "www.selenic.com/mercurial"
\end_inset
Property changes on: short/3D/PyLith/trunk/doc/userguide/materials/figs/pylith-materials.ai
___________________________________________________________________
Name: svn:mime-type
+ application/octet-stream
Modified: short/3D/PyLith/trunk/doc/userguide/preface.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/preface.lyx 2008-03-14 22:20:27 UTC (rev 11447)
+++ short/3D/PyLith/trunk/doc/userguide/preface.lyx 2008-03-14 22:27:24 UTC (rev 11448)
@@ -1,4 +1,4 @@
-#LyX 1.5.3 created this file. For more info see http://www.lyx.org/
+#LyX 1.5.1 created this file. For more info see http://www.lyx.org/
\lyxformat 276
\begin_document
\begin_header
@@ -156,7 +156,9 @@
\emph default
Pasadena, CA: Computational Infrastructure of Geodynamics, 2008.
- URL: geodynamics.org/cig/software/short/pylith/pylith_book-1.1.pdf
+ URL: geodynamics.org/cig/software/
+\newline
+short/pylith/pylith_book-1.1.pdf
\end_layout
\begin_layout Section
Modified: short/3D/PyLith/trunk/doc/userguide/pylith_cover.pdf
===================================================================
(Binary files differ)
Modified: short/3D/PyLith/trunk/doc/userguide/pylith_cover.psd
===================================================================
(Binary files differ)
Modified: short/3D/PyLith/trunk/doc/userguide/runpylith/runpylith.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/runpylith/runpylith.lyx 2008-03-14 22:20:27 UTC (rev 11447)
+++ short/3D/PyLith/trunk/doc/userguide/runpylith/runpylith.lyx 2008-03-14 22:27:24 UTC (rev 11448)
@@ -1,4 +1,4 @@
-#LyX 1.5.4 created this file. For more info see http://www.lyx.org/
+#LyX 1.5.1 created this file. For more info see http://www.lyx.org/
\lyxformat 276
\begin_document
\begin_header
@@ -1065,7 +1065,7 @@
\end_layout
\begin_layout Standard
-The mesh information defines the vertex coordinates as well as specifying
+The mesh information defines the vertex coordinates as well as specifies
the vertices composing each cell in the mesh.
The mesh information must also define at least one set of vertices for
which displacement (Dirichlet) boundary conditions will be provided.
@@ -1459,14 +1459,14 @@
\begin_layout Standard
SimpleDB uses a simple ASCII file to specify the variation of values (e.g.,
displacement field, slip field, physical properties) in space.
- The file format is described in Section
+ The file format is described in Section
\begin_inset LatexCommand ref
reference "sec:Spatialdata:SimpleIOAscii"
\end_inset
.
- The tutorials in Chapter
+ The tutorials in Chapter
\begin_inset LatexCommand ref
reference "cha:Tutorials"
@@ -1480,9 +1480,7 @@
As in the other Pyre objects, spatial database objects contain parameters
that can be set from the command line or using
\family typewriter
-.cfg or
-\family typewriter
-.pml
+.cfg or .pml
\family default
files.
The parameters for a spatial database are:
@@ -1538,7 +1536,7 @@
The SimpleDB spatial database is quite general.
When the values are uniform, it is often easier to use the UniformDB spatial
database and specify the values directly (either on the command line or
- in aparameters settings file).
+ in a parameters settings file).
However, if the values are used in more than one place, it is easier to
place the values in a SimpleDB file, because they can then be referred
to using the filename of the spatial database rather than having to repeatedly
@@ -1561,7 +1559,11 @@
\begin_layout Standard
Specify the physical properties of a linearly elastic, isotropicmaterial
- in a pylithapp.cfg file.
+ in a
+\family typewriter
+pylithapp.cfg
+\family default
+ file.
\end_layout
\begin_layout LyX-Code
@@ -1596,8 +1598,8 @@
One such database is the SCEC CVM-H database, which provides seismic velocities
and density information for much of southern California.
Spatialdata provides a direct interface to this database.
- See tutorial ?? for an example of using the SCEC CVM-H database for physical
- properties of an elastic material.
+ See Tutorial TODO:?? for an example of using the SCEC CVM-H database for
+ physical properties of an elastic material.
The interface is known to work with versions 5.2 and 5.3 of the SCEC CVM-H.
The Pyre properties for the SCEC CVM-H are:
\end_layout
@@ -1622,7 +1624,11 @@
\begin_layout Standard
Specify the physical properties of a linearly elastic, isotropicmaterial
- using the SCEC CVM-H in a pylithapp.cfg file.
+ using the SCEC CVM-H in a
+\family typewriter
+pylithapp.cfg
+\family default
+ file.
\end_layout
\begin_layout LyX-Code
@@ -1652,25 +1658,25 @@
\end_layout
\begin_layout Standard
-For materials, the "label" is a string used only for error messages.
- The "id" is an integer that corresponds to the material identifier in LaGriT
- (itetclr) and CUBIT (block id).
+For materials, the ``label'' is a string used only for error messages.
+ The ``id'' is an integer that corresponds to the material identifier in
+ LaGriT (itetclr) and CUBIT (block id).
The id also tags the cells in the mesh for associating cells with a specific
material model and quadrature rule.
- For boundary conditions the "label" is a string used to associate groups
- of vertices (psets in LaGriT and nodesets in CUBIT) with aboundary condition.
- PyLith 1.0 had an "id" for boundary conditions, but we removed it because
+ For boundary conditions the ``label'' is a string used to associate groups
+ of vertices (psets in LaGriT and nodesets in CUBIT) with a boundary condition.
+ PyLith 1.0 had an ``id'' for boundary conditions, but we removed it because
it was not used.
- For faults the "label" is a string used to associated groups of vertices
+ For faults the ``label'' is a string used to associate groups of vertices
(psets in LaGriT and nodesets in CUBIT) with vertices on the fault.
Note that some mesh generators use strings (LaGriT) to identify groups
of nodes while others use integers (CUBIT Exodus files).
Although CUBIT permits associated strings with nodesets, they are not included
in the Exodus files.
- The fault "id" is a integer used to tag the cohesive cells in the mesh
+ The fault ``id'' is a integer used to tag the cohesive cells in the mesh
with a specific fault and quadrature rule.
- Because we use the fault "id" to tag the cohesive cells in the mesh, it
- must be unique among the faults as well as the materials.
+ Because we use the fault ``id'' to tag the cohesive cells in the mesh,
+ it must be unique among the faults as well as the materials.
\end_layout
\begin_layout Section
@@ -1678,7 +1684,7 @@
\end_layout
\begin_layout Standard
-ADD STUFF HERE
+TODO: ADD STUFF HERE
\end_layout
\begin_layout Section
@@ -1694,7 +1700,7 @@
\begin_layout Quote
PyLith cannot find one of the libraries.
- You need to setup your environment variables (e.g., PATH, PYTHONPATH, and
+ You need to set up your environment variables (e.g., PATH, PYTHONPATH, and
LD_LIBRARY_PATH) to match your installation.
If you are using the PyLith binary on Linux or Mac OS X, run the command
@@ -1702,7 +1708,7 @@
source setup.sh
\family default
in the directory where you unpacked the distribution.
- This will setup your environment variables for you.
+ This will set up your environment variables for you.
If you are building PyLith from source, please consult the instructions
for building from source.
\end_layout
@@ -1711,18 +1717,27 @@
\paragraph_spacing single
\family typewriter
->> {command line}:: \newline
--- pyre.inventory(error) \newline
--- p4wd <- 'true' \newline
--- unrecognized property 'p4wd' \newline
->> {command line}:: \newline
--- pyre.inventory(error) \newline
--- p4pg <- 'true' \newline
+>> {command line}::
+\newline
+-- pyre.inventory(error)
+\newline
+-- p4wd <- 'true'
+\newline
+-- unrecognized
+ property 'p4wd'
+\newline
+>> {command line}::
+\newline
+-- pyre.inventory(error)
+\newline
+-- p4pg <-
+ 'true'
+\newline
-- unrecognized property ' p4pg'
\end_layout
\begin_layout Quote
-Verify that the 'mpirun' command included in the PyLith package is the first
+Verify that the `mpirun' command included in the PyLith package is the first
one on your PATH:
\end_layout
@@ -1736,7 +1751,5 @@
If it is not, adjust your PATH environment variable accordingly.
\end_layout
-
-
\end_body
\end_document
Property changes on: short/3D/PyLith/trunk/doc/userguide/tutorials/twohex8/figs/axialdisp.eps
___________________________________________________________________
Name: svn:mime-type
+ application/octet-stream
Property changes on: short/3D/PyLith/trunk/doc/userguide/tutorials/twohex8/figs/dislocation.eps
___________________________________________________________________
Name: svn:mime-type
+ application/octet-stream
Property changes on: short/3D/PyLith/trunk/doc/userguide/tutorials/twohex8/figs/sheardisp.eps
___________________________________________________________________
Name: svn:mime-type
+ application/octet-stream
Property changes on: short/3D/PyLith/trunk/doc/userguide/tutorials/twohex8/figs/twohex8-mesh.eps
___________________________________________________________________
Name: svn:mime-type
+ application/octet-stream
Property changes on: short/3D/PyLith/trunk/doc/userguide/tutorials/twohex8/figs/twohex8-mesh.fig.bak
___________________________________________________________________
Name: svn:mime-type
+ application/octet-stream
Property changes on: short/3D/PyLith/trunk/doc/userguide/tutorials/twohex8/figs/twotet4-mesh.eps
___________________________________________________________________
Name: svn:mime-type
+ application/octet-stream
Modified: short/3D/PyLith/trunk/doc/userguide/tutorials/twohex8/twohex8.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/tutorials/twohex8/twohex8.lyx 2008-03-14 22:20:27 UTC (rev 11447)
+++ short/3D/PyLith/trunk/doc/userguide/tutorials/twohex8/twohex8.lyx 2008-03-14 22:27:24 UTC (rev 11448)
@@ -1,4 +1,4 @@
-#LyX 1.5.3 created this file. For more info see http://www.lyx.org/
+#LyX 1.5.1 created this file. For more info see http://www.lyx.org/
\lyxformat 276
\begin_document
\begin_header
@@ -86,7 +86,7 @@
\end_inset
).
- The mesh geometry and topology is described in the file
+ The mesh geometry and topology are described in the file
\family typewriter
twohex8.mesh
\family default
@@ -223,8 +223,11 @@
rather than the SimpleDB implementation used in the other example problems.
For simple distributions of material properties (or boundary conditions),
this implementation is actually easier to use.
- Examining pylithapp.cfg, we specify the material information with the following
- set of parameters:
+ Examining
+\family typewriter
+pylithapp.cfg
+\family default
+, we specify the material information with the following set of parameters:
\end_layout
\begin_layout LyX-Code
@@ -943,7 +946,9 @@
\family default
,
\family typewriter
-dislocation_sliptime.spatialdb
+dislocation_
+\newline
+sliptime.spatialdb
\family default
\size default
) provide a complete description of the problem, and we can then run this
Modified: short/3D/PyLith/trunk/doc/userguide/tutorials/twotet4-geoproj/twotet4-geoproj.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/tutorials/twotet4-geoproj/twotet4-geoproj.lyx 2008-03-14 22:20:27 UTC (rev 11447)
+++ short/3D/PyLith/trunk/doc/userguide/tutorials/twotet4-geoproj/twotet4-geoproj.lyx 2008-03-14 22:27:24 UTC (rev 11448)
@@ -1,4 +1,4 @@
-#LyX 1.5.3 created this file. For more info see http://www.lyx.org/
+#LyX 1.5.1 created this file. For more info see http://www.lyx.org/
\lyxformat 276
\begin_document
\begin_header
@@ -41,6 +41,7 @@
\tracking_changes false
\output_changes false
\author ""
+\author ""
\end_header
\begin_body
@@ -119,7 +120,7 @@
\end_inset
).
- The mesh geometry and topology is described in the file
+ The mesh geometry and topology are described in the file
\family typewriter
twotet4.mesh
\family default
@@ -667,7 +668,9 @@
\family default
,
\family typewriter
-dislocation_sliptime.spatialdb
+dislocation_
+\newline
+sliptime.spatialdb
\family default
\size default
) provide a complete description of the problem, and we can then run this
Modified: short/3D/PyLith/trunk/doc/userguide/tutorials/twotri3/twotri3.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/tutorials/twotri3/twotri3.lyx 2008-03-14 22:20:27 UTC (rev 11447)
+++ short/3D/PyLith/trunk/doc/userguide/tutorials/twotri3/twotri3.lyx 2008-03-14 22:27:24 UTC (rev 11448)
@@ -1,4 +1,4 @@
-#LyX 1.5.3 created this file. For more info see http://www.lyx.org/
+#LyX 1.5.1 created this file. For more info see http://www.lyx.org/
\lyxformat 276
\begin_document
\begin_header
@@ -892,7 +892,7 @@
\begin_inset Graphics
filename figs/dislocation.jpg
lyxscale 50
- scale 50
+ scale 44
\end_inset
Modified: short/3D/PyLith/trunk/doc/userguide/userguide.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/userguide.lyx 2008-03-14 22:20:27 UTC (rev 11447)
+++ short/3D/PyLith/trunk/doc/userguide/userguide.lyx 2008-03-14 22:27:24 UTC (rev 11448)
@@ -1,4 +1,4 @@
-#LyX 1.5.4 created this file. For more info see http://www.lyx.org/
+#LyX 1.5.1 created this file. For more info see http://www.lyx.org/
\lyxformat 276
\begin_document
\begin_header
@@ -57,13 +57,13 @@
placement H
wide false
sideways false
-status open
+status collapsed
\begin_layout Standard
\noindent
\align center
\begin_inset Graphics
- filename pylith_cover.pdf
+ filename /Users/sue/pylith/pylith-1.0/pylith_cover.pdf
width 75page%
\end_inset
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