[cig-commits] r3915 - in
short/3D/PyLith/branches/pylith-0.8/doc/userguide: .
runpylith tutorials tutorials/reversenog tutorials/reversenog/figs
baagaard at geodynamics.org
baagaard at geodynamics.org
Mon Jul 3 16:18:24 PDT 2006
Author: baagaard
Date: 2006-07-03 16:18:23 -0700 (Mon, 03 Jul 2006)
New Revision: 3915
Added:
short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/figs/workflow.eps
short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/figs/workflow.fig
short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/figs/workflow.png
Modified:
short/3D/PyLith/branches/pylith-0.8/doc/userguide/makefile
short/3D/PyLith/branches/pylith-0.8/doc/userguide/runpylith/runpylith.xml
short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/figs/geometry.eps
short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/figs/geometry.fig
short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/figs/geometry.png
short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/reversenog.xml
short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/tutorials.xml
Log:
User guide, tutorial. Added workflow diagram for how input files are created.
Modified: short/3D/PyLith/branches/pylith-0.8/doc/userguide/makefile
===================================================================
--- short/3D/PyLith/branches/pylith-0.8/doc/userguide/makefile 2006-07-03 21:02:23 UTC (rev 3914)
+++ short/3D/PyLith/branches/pylith-0.8/doc/userguide/makefile 2006-07-03 23:18:23 UTC (rev 3915)
@@ -1,5 +1,5 @@
-#XSLSTYLESHEET_DIR=/usr/share/sgml/docbook/xsl-stylesheets
-XSLSTYLESHEET_DIR=/sw/share/xml/xsl/docbook-xsl
+XSLSTYLESHEET_DIR=/usr/share/sgml/docbook/xsl-stylesheets
+#XSLSTYLESHEET_DIR=/sw/share/xml/xsl/docbook-xsl
pylith_userguide.pdf pdf: pylith_userguide.fo
fop $< pylith_userguide.pdf
Modified: short/3D/PyLith/branches/pylith-0.8/doc/userguide/runpylith/runpylith.xml
===================================================================
--- short/3D/PyLith/branches/pylith-0.8/doc/userguide/runpylith/runpylith.xml 2006-07-03 21:02:23 UTC (rev 3914)
+++ short/3D/PyLith/branches/pylith-0.8/doc/userguide/runpylith/runpylith.xml 2006-07-03 23:18:23 UTC (rev 3915)
@@ -59,8 +59,8 @@
<filename>xx.PROC.ext</filename>. Setting up this naming scheme
is most easily done using symbolic links or copying files to
local directories on each machine using a shell script that
- starts a simulation. See <filename>runbm5.sh</filename> in <xref
- linkend="tutorial_scecbm5" /> for a simple example. You can also
+ starts a simulation. See <filename>runbm.py</filename> in <xref
+ linkend="tutorial_reversenog" /> for a simple example. You can also
choose your own filename template by setting the appropriate
command-line argument. See <xref
linkend="section_commandline_arguments" /> for more information.
Modified: short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/figs/geometry.eps
===================================================================
--- short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/figs/geometry.eps 2006-07-03 21:02:23 UTC (rev 3914)
+++ short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/figs/geometry.eps 2006-07-03 23:18:23 UTC (rev 3915)
@@ -1,8 +1,8 @@
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%%Creator: fig2dev Version 3.2 Patchlevel 4
-%%CreationDate: Fri Jun 30 13:03:28 2006
-%%For: brad at wl-dhcp140-212.Mines.EDU (Brad Aagaard)
+%%CreationDate: Mon Jul 3 16:11:34 2006
+%%For: brad at arling (Brad Aagaard)
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Modified: short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/figs/geometry.fig
===================================================================
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+++ short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/figs/geometry.fig 2006-07-03 23:18:23 UTC (rev 3915)
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Added: short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/figs/workflow.eps
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Added: short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/figs/workflow.fig
===================================================================
--- short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/figs/workflow.fig 2006-07-03 21:02:23 UTC (rev 3914)
+++ short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/figs/workflow.fig 2006-07-03 23:18:23 UTC (rev 3915)
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+4 1 32 50 -1 18 8 0.0000 4 120 450 5550 3975 Legend\001
+-6
+2 1 0 1 32 40 51 -1 20 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 2100 5925 3000 7275
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 300 5925 3000 7275
+2 1 0 1 32 40 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 1200 5925 3000 7275
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 3900 6975 3000 7275
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 4800 6975 3000 7275
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 5700 6975 3000 7275
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 6600 6975 3000 7275
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 5700 5925 3000 6225
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 3000 5925 3000 6225
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 3000 6450 3000 6750
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 3000 6975 3000 7275
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 1200 5400 3000 5700
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 1200 5400 3900 5700
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 1200 5400 4800 5700
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 1200 5400 2100 5700
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 1200 5400 1200 5700
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 1200 5400 300 5700
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 300 4875 1200 5175
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 1200 2250 1200 5175
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 3000 4875 1200 5175
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 3000 4350 3000 4650
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 3000 3825 3000 4125
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 3000 3300 3000 3600
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 3000 2775 3000 3075
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 3000 2250 3000 2550
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 1575 2100 2625 2100
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 1200 1725 1200 2025
+2 1 0 1 32 7 51 -1 -1 0.000 2 0 -1 1 0 2
+ 1 1 1.00 60.00 90.00
+ 1200 1200 1200 1500
+2 2 0 1 34 35 80 -1 30 0.000 2 0 -1 0 0 5
+ 2400 1875 3600 1875 3600 4500 2400 4500 2400 1875
Added: short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/figs/workflow.png
===================================================================
(Binary files differ)
Property changes on: short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/figs/workflow.png
___________________________________________________________________
Name: svn:mime-type
+ application/octet-stream
Modified: short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/reversenog.xml
===================================================================
--- short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/reversenog.xml 2006-07-03 21:02:23 UTC (rev 3914)
+++ short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/reversenog/reversenog.xml 2006-07-03 23:18:23 UTC (rev 3915)
@@ -1,8 +1,8 @@
<?xml version="1.0"?>
<!DOCTYPE section PUBLIC "-//OASIS//DTD DocBook XML V4.4//EN"
"http://www.oasis-open.org/docbook/xml/4.4/docbookx.dtd">
-<section id="tutorial_scecbm5">
- <title>Tutorial Using SCEC Benchmark 5</title>
+<section id="tutorial_reversenog">
+ <title>Tutorial Using Reverse-Slip Without Gravity Benchmark</title>
<!-- SECTION +++++++++++++++++++++++++++++++++++++++++++++++++++ -->
<section>
@@ -10,9 +10,9 @@
<para>
In this tutorial, we will walk through the steps necessary to
construct, run, and view the results of a benchmark problem
- (SCEC Benchmark 5). This problem examines the viscoelastic
- (Maxwell) relaxation of stress from a single, finite, dip-slip
- earthquake in 3-D without body forces.
+ involving reverse slip on a dipping fault. This problem examines
+ the viscoelastic (Maxwell) relaxation of stress from a single,
+ finite, reverse-slip earthquake in 3-D without body forces.
</para>
<!-- SECTION +++++++++++++++++++++++++++++++++++++++++++++++++ -->
@@ -47,8 +47,8 @@
displacements are held fixed through time.
</para>
- <figure id="figure_bm5_geometry">
- <title>Geometry of model domain for SCEC Benchmark 5.</title>
+ <figure id="figure_bmrsnog_geometry">
+ <title>Geometry of model domain for reverse-slip benchmark.</title>
<mediaobject>
<imageobject role="fo">
<imagedata fileref="figs/geometry.eps" format="EPS" />
@@ -69,7 +69,7 @@
through the full tutorial, in addition to
<application>PyLith</application> you will need <ulink
url="http://www.hpfem.jku.at/netgen/">
- <application>NetGen</application></ulink> to generate the mesh
+ <application>NETGEN</application></ulink> to generate the mesh
and <ulink url="http://www.paraview.org"> ParaView</ulink> to
view simulation results. You may use other packages, but some
adaption from what is described here will be
@@ -79,6 +79,31 @@
software packages installed.
</para>
</section>
+
+ <!-- SECTION +++++++++++++++++++++++++++++++++++++++++++++++++ -->
+ <section>
+ <title>Workflow</title>
+
+ <para>
+ The complete workflow used to create the input files for this
+ tutorial is shown in <xref linkend="figure_bmrsnog_workflow"
+ />. Because some of the steps involve commercial software
+ (e.g., Matlab), we will skip those steps in this tutorial.
+ </para>
+
+ <figure id="figure_bmrsnog_workflow">
+ <title>Workflow for setting up input files for benchmark with reverse
+ slip and no gravity.</title>
+ <mediaobject>
+ <imageobject role="fo">
+ <imagedata fileref="figs/workflow.eps" format="EPS" />
+ </imageobject>
+ <imageobject role="xhtml,html">
+ <imagedata fileref="figs/workflow.png" format="PNG" />
+ </imageobject>
+ </mediaobject>
+ </figure>
+ </section>
</section>
<!-- SECTION +++++++++++++++++++++++++++++++++++++++++++++++++++ -->
@@ -104,7 +129,7 @@
<listitem>
<para>
Go to the <filename
- class="directory">tutorials/scecbm5</filename>
+ class="directory">tutorials/reversenog</filename>
directory. The <filename
class="directory">archive</filename> directory contains all
of the input and output files associated with this
@@ -117,7 +142,7 @@
in the next section.
</para>
<screen>
-<prompt>bash$ </prompt><userinput>cd tutorials/scecbm5</userinput>
+<prompt>bash$ </prompt><userinput>cd tutorials/reversenog</userinput>
</screen>
</listitem>
@@ -127,7 +152,7 @@
<section>
<title>Tutor</title>
<para>
- Copy the <filename>tutor.sh</filename> script from the
+ Copy the <filename>tutor.py</filename> script from the
<filename class="directory">archive</filename> directory into
the <filename class="directory">workarea</filename>
directory. This script can (1) check to make sure the files
@@ -136,16 +161,16 @@
class="directory">archive</filename> directory that are needed
for a given step, or (3) prepare the work area for a given
step by removing old files that would otherwise be
- overwritten. Run <command>tutor.sh</command> without any
- arguments for more information. We will use this script at the
- beginning of each step to retrieve files as necessary from the
- archive.
+ overwritten. Run <command>tutor.py</command> with the
+ <option>-h</option> option for more information. We will use
+ this script at the beginning of each step to retrieve files as
+ necessary from the archive.
</para>
<tip>
<para>
When retrieving files from the <filename
classname="directory">archive</filename> directory,
- <command>tutor.sh</command> will not overwrite files that
+ <command>tutor.py</command> will not overwrite files that
already exist in the <filename
class="directory">workarea</filename> directory. This means
that if you mangle files in the working area, you should
@@ -155,14 +180,14 @@
<tip>
<para>
If you have run this tutorial previously, you may want to
- run <command>tutor.sh</command> in mode "clean" with step
+ run <command>tutor.py</command> in mode "clean" with step
"all" to clear out all old tutorial files.
</para>
</tip>
<screen>
<prompt>bash$ </prompt><userinput>cd workarea</userinput>
-<prompt>bash$ </prompt><userinput>cp ../archive/tutor.sh .</userinput>
-<prompt>bash$ </prompt><userinput>./tutor.sh clean all</userinput>
+<prompt>bash$ </prompt><userinput>cp ../archive/tutor.py .</userinput>
+<prompt>bash$ </prompt><userinput>./tutor.py -m clean -s all</userinput>
</screen>
</section>
@@ -173,27 +198,27 @@
<title>Generate the mesh</title>
<para>
In this step we will generate the finite-element mesh for the
- benchmark problem using <application>NetGen</application>.
+ benchmark problem using <application>NETGEN</application>.
</para>
<orderedlist numeration="arabic">
<listitem>
<para>
- In the <filename class="directory">scecbm5/workarea</filename>
- directory, run <command>tutor.sh</command> for step "mesh"
+ In the <filename class="directory">reversenog/workarea</filename>
+ directory, run <command>tutor.py</command> for step "mesh"
with mode "retrieve" to fetch the geometry file for
- <application>NetGen</application>. You may also want to run
- <command>tutor.sh</command> for this step with mode "clean"
+ <application>NETGEN</application>. You may also want to run
+ <command>tutor.py</command> for this step with mode "clean"
to clean out old files.
</para>
<screen>
-<prompt>bash$ </prompt><userinput>./tutor.sh retrieve mesh</userinput>
-<prompt>bash$ </prompt><userinput>./tutor.sh clean mesh</userinput>
+<prompt>bash$ </prompt><userinput>./tutor.py -m retrieve -s mesh</userinput>
+<prompt>bash$ </prompt><userinput>./tutor.py -m clean -s mesh</userinput>
</screen>
</listitem>
<listitem>
<para>
- Examine the <filename>bm5.geo</filename> file to see how the
+ Examine the <filename>bmrsnog.geo</filename> file to see how the
geometry for the problem is defined. Notice that the
different planes have been flagged with different boundary
condition codes. These will be used to associate boundary
@@ -202,7 +227,7 @@
</listitem>
<listitem>
<para>
- Start up <application>NetGen</application> by running
+ Start up <application>NETGEN</application> by running
<command>ng</command>.
</para>
<screen>
@@ -213,7 +238,7 @@
<para>
Select <menuchoice><guimenu>File</guimenu><guimenuitem>Load
Geometry</guimenuitem></menuchoice> and select
- <filename>bm5.geo</filename>.
+ <filename>bmrsnog.geo</filename>.
</para>
</listitem>
<listitem>
@@ -224,13 +249,13 @@
<listitem>
<para>
Export the mesh to a file named
- <filename>bm5.netgen</filename>, making sure the export
+ <filename>bmrsnog.netgen</filename>, making sure the export
filetype is "Neutral format".
</para>
</listitem>
<listitem>
<para>
- You can now exit <application>NetGen</application>.
+ You can now exit <application>NETGEN</application>.
</para>
</listitem>
</orderedlist>
@@ -247,18 +272,18 @@
<orderedlist numeration="arabic">
<listitem>
<para>
- Run <command>tutor.sh</command> for step "setup" with mode
+ Run <command>tutor.py</command> for step "setup" with mode
"retrieve" to fetch files from the archive.
</para>
<screen>
-<prompt>bash$ </prompt><userinput>./tutor.sh retrieve setup</userinput>
+<prompt>bash$ </prompt><userinput>./tutor.py -m retrieve -s setup</userinput>
</screen>
</listitem>
<listitem>
<para>
First, we need to build two simple Fortran utilities that we
will use to generate PyLith input files from the
- <application>NetGen</application> output.
+ <application>NETGEN</application> output.
</para>
<orderedlist numeration="lowerroman">
<listitem>
@@ -288,7 +313,7 @@
<listitem>
<para>
A Fortran program to read
- <application>NetGen</application> neutral format
+ <application>NETGEN</application> neutral format
and create several of the input files needed by
PyLith.
</para>
@@ -310,7 +335,7 @@
</screen>
<tip>
<para>
- If you plan to use <application>NetGen</application> to
+ If you plan to use <application>NETGEN</application> to
generate meshes, you may want to copy these utilities to
a location in your <envar>PATH</envar> or update your
<envar>PATH</envar> to include the <filename
@@ -324,7 +349,7 @@
class="directory">workarea</filename> directory.
</para>
<screen>
-<prompt>bash$ </prompt><userinput>cd ../scecbm5/workarea</userinput>
+<prompt>bash$ </prompt><userinput>cd ../reversenog/workarea</userinput>
</screen>
</listitem>
</orderedlist>
@@ -332,22 +357,22 @@
<listitem>
<para>
Run the utility program <command>readnetgen</command> to
- process the <application>NetGen</application> output file
+ process the <application>NETGEN</application> output file
into PyLith compatible input files. It will ask for a root
- filename, enter <filename>bm5</filename>. This utilitiy will
+ filename, enter <filename>bmrsnog</filename>. This utilitiy will
generate the following files:
- <filename>bm5.w01.wink</filename>,
- <filename>bm5.coord</filename>,
- <filename>bm5.connect</filename>,
- <filename>bm5.bc</filename>,
- <filename>bm5.1.fcoord</filename>,
- <filename>bm5.1.fbc</filename>.
+ <filename>bmrsnog.w01.wink</filename>,
+ <filename>bmrsnog.coord</filename>,
+ <filename>bmrsnog.connect</filename>,
+ <filename>bmrsnog.bc</filename>,
+ <filename>bmrsnog.1.fcoord</filename>,
+ <filename>bmrsnog.1.fbc</filename>.
</para>
<screen>
<prompt>bash$ </prompt><userinput>../../utils/readnetgen</userinput>
<prompt> Enter root name for all files. Both input and</prompt>
<prompt> output files will all have this prefix:</prompt>
-<userinput>bm5</userinput>
+<userinput>bmrsnog</userinput>
</screen>
</listitem>
<listitem>
@@ -359,17 +384,17 @@
second degree polynomials. The <command>readnetgen</command>
program has already produced the main input for
<command>faultcalc</command> — split node definitions
- in <filename>bm5.1.fbc</filename> and nodal coordinates in
- <filename>bm5.coord</filename>. The file
- <filename>bm5.fault.par</filename> contains the polynomial
+ in <filename>bmrsnog.1.fbc</filename> and nodal coordinates in
+ <filename>bmrsnog.coord</filename>. The file
+ <filename>bmrsnog.fault.par</filename> contains the polynomial
coefficients for this benchmark problem. Run
<command>faultcalc</command> to get the
- <filename>bm5.split</filename> file that PyLith needs as
+ <filename>bmrsnog.split</filename> file that PyLith needs as
input.
</para>
<screen>
-<prompt>bash$ </prompt><userinput>../../utils/faultcalc p=bm5.fault.par n=bm5.coord \
-i=bm5.1.fbc o=bm5.split</userinput>
+<prompt>bash$ </prompt><userinput>../../utils/faultcalc p=bmrsnog.fault.par n=bmrsnog.coord \
+i=bmrsnog.1.fbc o=bmrsnog.split</userinput>
</screen>
</listitem>
<listitem>
@@ -378,22 +403,22 @@
complicated and require computing the displacements for the
analytical elastic solution at each finite element node on
the external boundaries. The file specifying these boundary
- conditions, <filename>bm5.bc</filename>, was produced with
+ conditions, <filename>bmrsnog.bc</filename>, was produced with
<command>readnetgen</command> using the
- <filename>bm5.aux</filename> file (which contains
+ <filename>bmrsnog.aux</filename> file (which contains
precomputed displacements for the external boundaries for
- the mesh produced from the <filename>bm5.geo</filename>
+ the mesh produced from the <filename>bmrsnog.geo</filename>
geometry).
</para>
<warning>
<para>
- If you make any changes to <filename>bm5.geo</filename> or
+ If you make any changes to <filename>bmrsnog.geo</filename> or
change the geometry within
- <application>NetGen</application>, the boundary condition
- file <filename>bm5.bc</filename> will no longer be
+ <application>NETGEN</application>, the boundary condition
+ file <filename>bmrsnog.bc</filename> will no longer be
correct and you will have to generate one yourself.
Note that it is also possible that a different version
- of <application>NetGen</application> may provide a slightly
+ of <application>NETGEN</application> may provide a slightly
different mesh, which would also be incompatible with the
provided boundary conditions.
</para>
@@ -413,35 +438,35 @@
<orderedlist numeration="arabic">
<listitem>
<para>
- Run <command>tutor.sh</command> for step "run1" with mode
+ Run <command>tutor.py</command> for step "run1" with mode
"retrieve" to fetch some parameter files from the archive.
</para>
<screen>
-<prompt>bash$ </prompt><userinput>./tutor.sh retrieve run1</userinput>
+<prompt>bash$ </prompt><userinput>./tutor.py -m retrieve -s run1</userinput>
</screen>
</listitem>
<listitem>
<para>
- In <filename>bm5.fuldat</filename>, we have specified
+ In <filename>bmrsnog.fuldat</filename>, we have specified
that we want full output at time steps 10, 50, and 100. We
define six materials with both elastic and viscoelastic
- behavior in <filename>bm5.prop</filename>. In
- <filename>bm5.statevar</filename> we choose to include total
+ behavior in <filename>bmrsnog.prop</filename>. In
+ <filename>bmrsnog.statevar</filename> we choose to include total
stress, total strain, incremental stress, and incremental
strain in the output. As defined in
- <filename>bm5.time</filename>, the simulation will have 100
+ <filename>bmrsnog.time</filename>, the simulation will have 100
time steps of 0.1 year each.
</para>
</listitem>
<listitem>
<para>
- Run the simulation by executing <userinput>runbm5.sh
- 1</userinput>, where the 1 refers to the number of processors.
+ Run the simulation by executing <userinput>runbm.py
+ -n 1</userinput>, where the 1 refers to the number of processors.
</para>
<tip>
<para>
All of the input is echoed in the file
- <filename>bm5.ascii</filename>. You can check to make sure
+ <filename>bmrsnog.ascii</filename>. You can check to make sure
your input is digested correctly by examining this
file. For large problems, this file can be quite
large. You can suppress creation of this file using the
@@ -454,7 +479,7 @@
</para>
</tip>
<screen>
-<prompt>bash$ </prompt><userinput>./runbm5.sh 1</userinput>
+<prompt>bash$ </prompt><userinput>./runbm.py -n 1</userinput>
</screen>
</listitem>
</orderedlist>
@@ -478,12 +503,12 @@
<orderedlist numeration="arabic">
<listitem>
<para>
- If necessary, run <command>tutor.sh</command> for step
+ If necessary, run <command>tutor.py</command> for step
"viz1" with mode "retrieve" to fetch the simulation output
from the archive.
</para>
<screen>
-<prompt>bash$ </prompt><userinput>./tutor.sh retrieve viz1</userinput>
+<prompt>bash$ </prompt><userinput>./tutor.py -m retrieve -s viz1</userinput>
</screen>
</listitem>
<listitem>
@@ -493,14 +518,14 @@
information with the output at a given time step into a
complete <acronym>UCD</acronym> file. For example, use
<command>cat</command> to merge the nodal coordinates file
- (<filename>bm5_1.0.mesh.inp</filename>) and the nodal
+ (<filename>bmrsnog_1.0.mesh.inp</filename>) and the nodal
displacements at time step 10 file
- (<filename>bm5_1.0.mesh.time.00010.inp</filename>) into
- <filename>bm5_1.0.mesh.t00010.inp</filename>.
+ (<filename>bmrsnog_1.0.mesh.time.00010.inp</filename>) into
+ <filename>bmrsnog_1.0.mesh.t00010.inp</filename>.
</para>
<screen>
-<prompt>bash$ </prompt><userinput>cat bm5_1.0.mesh.inp bm5_1.0.mesh.time.00010.inp \
-> bm5_1.0.mesh.t00010.inp</userinput>
+<prompt>bash$ </prompt><userinput>cat bmrsnog_1.0.mesh.inp bmrsnog_1.0.mesh.time.00010.inp \
+> bmrsnog_1.0.mesh.t00010.inp</userinput>
</screen>
</listitem>
<listitem>
@@ -523,13 +548,13 @@
should see a color rendering of the x displacements. You can
use the mouse to rotate, translate, and zoom. Your image
should look similar to the one in <xref
- linkend="figure_bm5_xdisp_t10" />.
+ linkend="figure_bmrsnog_xdisp_t10" />.
</para>
- <figure id="figure_bm5_xdisp_t10">
+ <figure id="figure_bmrsnog_xdisp_t10">
<title>ParaView rendering of displacement in x-direction at
- time step 10 (10 yrs after imposed dislocation) for SCEC
- Benchmark 5.</title>
+ time step 10 (10 yrs after imposed dislocation) for the
+ reverse slip without gravity benchmark.</title>
<mediaobject>
<imageobject role="fo">
<imagedata fileref="figs/xdisp_t10.eps" format="EPS" />
@@ -570,13 +595,14 @@
also making the displacement vectors visible (colored using
<literal>property</literal>), you should see an image
similar to the one in <xref
- linkend="figure_bm5_xdisp_vec_t10" />.
+ linkend="figure_bmrsnog_xdisp_vec_t10" />.
</para>
- <figure id="figure_bm5_xdisp_vec_t10">
+ <figure id="figure_bmrsnog_xdisp_vec_t10">
<title>ParaView rendering of displacement in x-direction and
displacement vectors at time step 10 (10 yrs after imposed
- dislocation) for SCEC Benchmark 5.</title>
+ dislocation) for the reverse slip without gravity
+ benchmark.</title>
<mediaobject>
<imageobject role="fo">
<imagedata fileref="figs/xdisp_vec_t10.eps" format="EPS" />
@@ -606,28 +632,28 @@
<orderedlist numeration="arabic">
<listitem>
<para>
- Run <command>tutor.sh</command> for step "run2" with mode
+ Run <command>tutor.py</command> for step "run2" with mode
"retrieve" to make sure all parameter files are available.
</para>
<screen>
-<prompt>bash$ </prompt><userinput>./tutor.sh retrieve run2</userinput>
+<prompt>bash$ </prompt><userinput>./tutor.py -m retrieve -s run2</userinput>
</screen>
</listitem>
<listitem>
<para>
The parameter files are the same as those in the single
- processor run. The <command>runbm5</command> script will
+ processor run. The <command>runbm</command> script will
automatically take care of duplicating these files so that
there is one for each processor.
</para>
</listitem>
<listitem>
<para>
- Run the simulation by executing <command>runbm5.sh
- 2</command>, where the 2 refers to the number of processors.
+ Run the simulation by executing <command>runbm.py
+ -n 2</command>, where the 2 refers to the number of processors.
</para>
<screen>
-<prompt>bash$ </prompt><userinput>./runbm5.sh 2</userinput>
+<prompt>bash$ </prompt><userinput>./runbm.py -n 2</userinput>
</screen>
</listitem>
</orderedlist>
@@ -648,12 +674,12 @@
<orderedlist numeration="arabic">
<listitem>
<para>
- If necessary, run <command>tutor.sh</command> for step
+ If necessary, run <command>tutor.py</command> for step
"viz2" with mode "retrieve" to fetch the simulation output
from the archive.
</para>
<screen>
-<prompt>bash$ </prompt><userinput>./tutor.sh retrieve viz2</userinput>
+<prompt>bash$ </prompt><userinput>./tutor.py -m retrieve -s viz2</userinput>
</screen>
</listitem>
<listitem>
@@ -667,10 +693,10 @@
processor.
</para>
<screen>
-<prompt>bash$ </prompt><userinput>cat bm5_2.0.mesh.inp bm5_2.0.mesh.time.00010.inp
-> bm5_2.0.mesh.t00010.inp</userinput>
-<prompt>bash$ </prompt><userinput>cat bm5_2.1.mesh.inp bm5_2.1.mesh.time.00010.inp
-> bm5_2.1.mesh.t00010.inp</userinput>
+<prompt>bash$ </prompt><userinput>cat bmrsnog_2.0.mesh.inp bmrsnog_2.0.mesh.time.00010.inp
+> bmrsnog_2.0.mesh.t00010.inp</userinput>
+<prompt>bash$ </prompt><userinput>cat bmrsnog_2.1.mesh.inp bmrsnog_2.1.mesh.time.00010.inp
+> bmrsnog_2.1.mesh.t00010.inp</userinput>
</screen>
</listitem>
<listitem>
Modified: short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/tutorials.xml
===================================================================
--- short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/tutorials.xml 2006-07-03 21:02:23 UTC (rev 3914)
+++ short/3D/PyLith/branches/pylith-0.8/doc/userguide/tutorials/tutorials.xml 2006-07-03 23:18:23 UTC (rev 3915)
@@ -5,5 +5,5 @@
<title>Tutorials</title>
<xi:include
- xmlns:xi="http://www.w3.org/2001/XInclude" href="tutorialbm5/tutorialbm5.xml" />
+ xmlns:xi="http://www.w3.org/2001/XInclude" href="reversenog/reversenog.xml" />
</chapter>
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