[cig-commits] r20417 - in short/3D/PyLith/branches/v1.7-stable/doc/userguide: materials runpylith
sue at geodynamics.org
sue at geodynamics.org
Tue Jun 26 11:55:49 PDT 2012
Author: sue
Date: 2012-06-26 11:55:48 -0700 (Tue, 26 Jun 2012)
New Revision: 20417
Modified:
short/3D/PyLith/branches/v1.7-stable/doc/userguide/materials/materials.lyx
short/3D/PyLith/branches/v1.7-stable/doc/userguide/runpylith/runpylith.lyx
Log:
fixed typos and format problems
Modified: short/3D/PyLith/branches/v1.7-stable/doc/userguide/materials/materials.lyx
===================================================================
--- short/3D/PyLith/branches/v1.7-stable/doc/userguide/materials/materials.lyx 2012-06-26 16:23:52 UTC (rev 20416)
+++ short/3D/PyLith/branches/v1.7-stable/doc/userguide/materials/materials.lyx 2012-06-26 18:55:48 UTC (rev 20417)
@@ -191,11 +191,7 @@
\end_inset
-for examples
-\family typewriter
-that
-\family default
- demonstrate how to specify more than one material model.
+ for examples that demonstrate how to specify more than one material model.
\end_layout
\begin_layout Subsection
@@ -325,11 +321,7 @@
\end_layout
\begin_layout Standard
-These settings correspond to the the problem in
-\family typewriter
-Section
-\family default
-
+These settings correspond to the the problem in Section
\begin_inset CommandInset ref
LatexCommand ref
reference "sec:Tutorial-3d-hex8"
@@ -396,11 +388,7 @@
\end_layout
\begin_layout Standard
-These settings again correspond to the problem in
-\family typewriter
-Section
-\family default
-
+These settings again correspond to the problem in Section
\begin_inset CommandInset ref
LatexCommand ref
reference "sec:Tutorial-3d-hex8"
@@ -443,11 +431,7 @@
Similarly, other material models require state variables in addition to
the default stress and strain variables that are used by all material models.
Additional output may be requested for a material model, as in this example
- (
-\family typewriter
-see Section
-\family default
-
+ (see Section
\begin_inset CommandInset ref
LatexCommand ref
reference "sec:Tutorial-Two-hexahedra"
@@ -816,9 +800,9 @@
\begin_layout Plain Layout
\family typewriter
-mu, lambda, density,
+mu, lambda, density, alpha_yield
\family default
-alpha_yield,
+,
\family typewriter
beta, alpha_flow
\end_layout
@@ -4378,7 +4362,7 @@
\end_inset
-Where
+where
\begin_inset Formula
\begin{gather}
^{t+\Delta t}T_{i}=\phantom{}^{t+\Delta t}S_{i}\:;\:\:1\leq i\leq3\label{eq:91}\\
Modified: short/3D/PyLith/branches/v1.7-stable/doc/userguide/runpylith/runpylith.lyx
===================================================================
--- short/3D/PyLith/branches/v1.7-stable/doc/userguide/runpylith/runpylith.lyx 2012-06-26 16:23:52 UTC (rev 20416)
+++ short/3D/PyLith/branches/v1.7-stable/doc/userguide/runpylith/runpylith.lyx 2012-06-26 18:55:48 UTC (rev 20417)
@@ -5044,7 +5044,7 @@
\family typewriter
.dat
\family default
-).
+.
The HDF5 files include relative paths to the external data files, so these
files can also be moved, but they, too, must be kept together in the same
directory.
@@ -5128,7 +5128,7 @@
\end_inset
-for a table of component values for tensor output.
+ for a table of component values for tensor output.
\end_layout
\begin_layout Subsubsection
@@ -5305,7 +5305,7 @@
\family typewriter
--help-properties
\family default
- command line arguments when running PyLith to check the parameters to make
+ command-line arguments when running PyLith to check the parameters to make
sure PyLith is using the parameters you intended.
\end_layout
@@ -5324,13 +5324,17 @@
\family default
,
\family typewriter
+
+\begin_inset Newline newline
+\end_inset
+
--petsc.ksp_converged_reason
\family default
, and
\family typewriter
--petsc.snes_converged_reason
\family default
- command line arguments (or set them in a parameter file) to view PyLith
+ command-line arguments (or set them in a parameter file) to view PyLith
performance and monitor the convergence.
\end_layout
@@ -5451,12 +5455,21 @@
The workaround is:
\end_layout
+\begin_deeper
\begin_layout Enumerate
-Go to the lib/python2.6/site-packages directory.
+Go to the
+\family typewriter
+lib/python2.6/site-packages
+\family default
+ directory.
\end_layout
\begin_layout Enumerate
-Unzip merlin-1.7-py2.6.egg (if it is a file and not a directory).
+Unzip
+\family typewriter
+merlin-1.7-py2.6.egg
+\family default
+ (if it is a file and not a directory).
\end_layout
\begin_layout Enumerate
@@ -5464,15 +5477,28 @@
\end_layout
\begin_layout Enumerate
-Edit __init__.py.
+Edit
+\family typewriter
+__init__.py
+\family default
+.
Replace line 308 plat = get_platform() with plat = "linux-i686"
\end_layout
\begin_layout Enumerate
-If merlin-1.7-py2.6.egg is a file, rezip merlin.
- Go to the site-packages directory and enter "zip -r merlin-1.7-py2.6.egg merlin".
+If
+\family typewriter
+merlin-1.7-py2.6.egg
+\family default
+ is a file, rezip merlin.
+ Go to the site-packages directory and enter "
+\family typewriter
+zip -r merlin-1.7-py2.6.egg merlin
+\family default
+".
\end_layout
+\end_deeper
\begin_layout Itemize
\family typewriter
@@ -5497,7 +5523,7 @@
such as the case of a problem without Dirichlet boundary conditions on
any boundary.
If this arises when using the split fields and algebraic multigrid precondition
-ing and no additional Dirichlet boundary conditions are desired, then the
+ing, and no additional Dirichlet boundary conditions are desired, then the
workaround is to revert to using the Additive Schwarz preconditioning without
split fields as discussed in Section
\begin_inset CommandInset ref
@@ -5517,8 +5543,8 @@
\begin_layout Quote
This often indicates that PyLith is using incompatible versions of libraries.
This can result from changing your environment variables after configuring
- or installing PyLith (when building from source) or errors in setting the
- environment variables (PATH, LD_LIBRARY_PATH, and PYTHONPATH).
+ or installing PyLith (when building from source) or from errors in setting
+ the environment variables (PATH, LD_LIBRARY_PATH, and PYTHONPATH).
If the former case, simply reconfigure and rebuild PyLith.
In the latter case, check your environment variables (order matters!) to
make sure PyLith finds the desired directories before system directories.
@@ -5554,7 +5580,7 @@
\family typewriter
--petsc.start_in_debugger
\family default
- command line argument:
+ command-line argument:
\end_layout
\begin_layout LyX-Code
@@ -5592,7 +5618,7 @@
\begin_layout LyX-Code
-\size small
+\size footnotesize
mpirun -np 1 /path/to/valgrind --log-file=valgrind-log /path/to/mpinemesis
--pyre-start [..lots of junk..]
\end_layout
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