[cig-commits] r11466 - in short/3D/PyLith/trunk/doc/userguide: . analyticalsolns materials tutorials/twoquad4 tutorials/twotet4 tutorials/twotet4-geoproj
sue at geodynamics.org
sue at geodynamics.org
Mon Mar 17 17:17:49 PDT 2008
Author: sue
Date: 2008-03-17 17:17:49 -0700 (Mon, 17 Mar 2008)
New Revision: 11466
Modified:
short/3D/PyLith/trunk/doc/userguide/analyticalsolns/analyticalsolns.lyx
short/3D/PyLith/trunk/doc/userguide/glossary.lyx
short/3D/PyLith/trunk/doc/userguide/license.lyx
short/3D/PyLith/trunk/doc/userguide/materials/materials.lyx
short/3D/PyLith/trunk/doc/userguide/tutorials/twoquad4/twoquad4.lyx
short/3D/PyLith/trunk/doc/userguide/tutorials/twotet4-geoproj/twotet4-geoproj.lyx
short/3D/PyLith/trunk/doc/userguide/tutorials/twotet4/twotet4.lyx
Log:
all sections read through and typos/formatting fixed except held off on runpylith
Modified: short/3D/PyLith/trunk/doc/userguide/analyticalsolns/analyticalsolns.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/analyticalsolns/analyticalsolns.lyx 2008-03-17 23:42:44 UTC (rev 11465)
+++ short/3D/PyLith/trunk/doc/userguide/analyticalsolns/analyticalsolns.lyx 2008-03-18 00:17:49 UTC (rev 11466)
@@ -79,7 +79,8 @@
\end_layout
\begin_layout Standard
-Our derivation follows the procedures outlined in
+Our derivation follows the procedures outlined in Timoshenko and Goodier
+
\begin_inset LatexCommand cite
key "Timoshenko:Goodier:1987"
Modified: short/3D/PyLith/trunk/doc/userguide/glossary.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/glossary.lyx 2008-03-17 23:42:44 UTC (rev 11465)
+++ short/3D/PyLith/trunk/doc/userguide/glossary.lyx 2008-03-18 00:17:49 UTC (rev 11466)
@@ -1,5 +1,5 @@
-#LyX 1.4.3 created this file. For more info see http://www.lyx.org/
-\lyxformat 245
+#LyX 1.5.1 created this file. For more info see http://www.lyx.org/
+\lyxformat 276
\begin_document
\begin_header
\textclass book
@@ -8,13 +8,21 @@
\end_preamble
\language english
\inputencoding latin1
-\fontscheme default
+\font_roman default
+\font_sans default
+\font_typewriter default
+\font_default_family default
+\font_sc false
+\font_osf false
+\font_sf_scale 100
+\font_tt_scale 100
\graphics default
\paperfontsize default
\spacing single
\papersize default
\use_geometry true
\use_amsmath 1
+\use_esint 0
\cite_engine basic
\use_bibtopic false
\paperorientation portrait
@@ -32,12 +40,14 @@
\paperpagestyle default
\tracking_changes false
\output_changes false
+\author ""
\end_header
\begin_body
\begin_layout Chapter
-\begin_inset LatexCommand \label{cha:Glossary}
+\begin_inset LatexCommand label
+name "cha:Glossary"
\end_inset
@@ -45,15 +55,26 @@
\end_layout
\begin_layout Description
-sieve The sieve construction is a representation of the topology of the finite element mesh based upon a covering relation. For example, segments are covered by their endpoints, faces by their bounding edges, etc. Geometry is absent from the sieve, and is repesented instead by a coordinate section. Sieves can also be understood as directed acyclic graphs, where we call the constituents points and arrows.
+sieve The sieve construction is a representation of the topology of the
+ finite element mesh based upon a covering relation.
+ For example, segments are covered by their endpoints, faces by their bounding
+ edges, etc.
+ Geometry is absent from the sieve, and is repesented instead by a coordinate
+ section.
+ Sieves can also be understood as directed acyclic graphs, where we call
+ the constituents points and arrows.
\end_layout
\begin_layout Description
-mesh A finite element mesh, used to partition space and provide support for the basis functions. It consists of a sieve and bundle of sections. including the coordinate section.
+mesh A finite element mesh, used to partition space and provide support
+ for the basis functions.
+ It consists of a sieve and bundle of sections, including the coordinate
+ section.
\end_layout
\begin_layout Description
-cell The highest dimensional elements of a mesh, or mesh entities of codimension zero.
+cell The highest dimensional elements of a mesh, or mesh entities of codimension
+ zero.
\end_layout
\begin_layout Description
@@ -61,37 +82,58 @@
\end_layout
\begin_layout Description
-face Mesh elements that separate cells, or mesh entities of codimension one.
+face Mesh elements that separate cells, or mesh entities of codimension
+ one.
\end_layout
\begin_layout Description
-field A field is a parallel section which can be completed, or made consistent, across process boundaries. These are used to represent continuum fields.
+field A parallel section which can be completed, or made consistent, across
+ process boundaries.
+ These are used to represent continuum fields.
\end_layout
\begin_layout Description
-section These objects associate data to points in a sieve, which is equivalent to associating data to entities in a mesh. Like sieves, sections can also be understood as DAGs, with the points replaced by arrays of data and the arrows reversed. Sections may also be vectors, but are not limited to this. We use them to represent not only solution fields, but material property markers and boundary conditions. Sections must have restrict and update methods, which are allowable between any two points path-connected in the DAG.
+section These objects associate data to points in a sieve, which is equivalent
+ to associating data to entities in a mesh.
+ Like sieves, sections can also be understood as DAGs, with the points replaced
+ by arrays of data and the arrows reversed.
+ Sections may also be vectors, but are not limited to this.
+ We use them to represent not only solution fields, but material property
+ markers and boundary conditions.
+ Sections must have restrict and update methods, which are allowable between
+ any two points path-connected in the DAG.
\end_layout
\begin_layout Description
fiber\InsetSpace \space{}
-dimension The topological dimension of the mesh, meaning the cell dimension. It can also mean the dimension of the space in which the mesh is embedded, but this is properly the embedding dimension.
+dimension The topological dimension of the mesh, meaning the cell dimension.
+ It can also mean the dimension of the space in which the mesh is embedded,
+ but this is properly the embedding dimension.
\end_layout
\begin_layout Description
cohesive\InsetSpace \space{}
-cell A zero volume cell inserted between any two cells which shared a fault face. They are prisms with a fault face as the base.
+cell A zero volume cell inserted between any two cells which shared
+ a fault face.
+ They are prisms with a fault face as the base.
\end_layout
\begin_layout Description
-cone The set of mesh entities which cover any entity in a sieve. For example, the cone of a triangle is its three edges.
+cone The set of mesh entities which cover any entity in a sieve.
+ For example, the cone of a triangle is its three edges.
\end_layout
\begin_layout Description
-restrict The action of retrieving the values associated with a given mesh entity from a section. This is analogous to the restriction of a function to a subdomain. In finite element calculation, we restrict our global interpolant to an element in order to calculate the basis function coefficients.
+restrict The action of retrieving the values associated with a given mesh
+ entity from a section.
+ This is analogous to the restriction of a function to a subdomain.
+ In finite element calculation, we restrict our global interpolant to an
+ element in order to calculate the basis function coefficients.
\end_layout
\begin_layout Description
-support The set of mesh entities which are covered by any entity in a sieve. For example, the support of a triangle is the two tetrahedra it separates.
+support The set of mesh entities which are covered by any entity in a sieve.
+ For example, the support of a triangle is the two tetrahedra it separates.
\end_layout
\begin_layout Standard
Modified: short/3D/PyLith/trunk/doc/userguide/license.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/license.lyx 2008-03-17 23:42:44 UTC (rev 11465)
+++ short/3D/PyLith/trunk/doc/userguide/license.lyx 2008-03-18 00:17:49 UTC (rev 11466)
@@ -1,5 +1,5 @@
-#LyX 1.4.3 created this file. For more info see http://www.lyx.org/
-\lyxformat 245
+#LyX 1.5.1 created this file. For more info see http://www.lyx.org/
+\lyxformat 276
\begin_document
\begin_header
\textclass book
@@ -8,13 +8,21 @@
\end_preamble
\language english
\inputencoding latin1
-\fontscheme default
+\font_roman default
+\font_sans default
+\font_typewriter default
+\font_default_family default
+\font_sc false
+\font_osf false
+\font_sf_scale 100
+\font_tt_scale 100
\graphics default
\paperfontsize default
\spacing single
\papersize default
\use_geometry true
\use_amsmath 1
+\use_esint 0
\cite_engine basic
\use_bibtopic false
\paperorientation portrait
@@ -32,6 +40,7 @@
\paperpagestyle default
\tracking_changes false
\output_changes false
+\author ""
\end_header
\begin_body
@@ -41,7 +50,7 @@
\end_layout
\begin_layout Standard
-Copyright (C) 2004-2007 Rensselaer Polytechnic Institute
+Copyright (C) 2004-2008 Rensselaer Polytechnic Institute
\end_layout
\begin_layout Standard
Modified: short/3D/PyLith/trunk/doc/userguide/materials/materials.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/materials/materials.lyx 2008-03-17 23:42:44 UTC (rev 11465)
+++ short/3D/PyLith/trunk/doc/userguide/materials/materials.lyx 2008-03-18 00:17:49 UTC (rev 11466)
@@ -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
@@ -430,7 +430,7 @@
\align center
\series bold
-Name in Spatial Database
+Name in Spatial Database
\end_layout
\end_inset
@@ -780,7 +780,7 @@
\begin_inset Tabular
<lyxtabular version="3" rows="4" columns="3">
<features>
-<column alignment="left" valignment="top" leftline="true" rightline="true" width="0.68in">
+<column alignment="center" valignment="top" leftline="true" rightline="true" width="0.68in">
<column alignment="left" valignment="top" leftline="true" rightline="true" width="2.85in">
<column alignment="center" valignment="top" leftline="true" rightline="true" width="2.47in">
<row topline="true" bottomline="true">
@@ -1088,7 +1088,7 @@
\end_inset
) in Equation
-\begin_inset LatexCommand ref
+\begin_inset LatexCommand vpageref
reference "eq:5"
\end_inset
Modified: short/3D/PyLith/trunk/doc/userguide/tutorials/twoquad4/twoquad4.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/tutorials/twoquad4/twoquad4.lyx 2008-03-17 23:42:44 UTC (rev 11465)
+++ short/3D/PyLith/trunk/doc/userguide/tutorials/twoquad4/twoquad4.lyx 2008-03-18 00:17:49 UTC (rev 11466)
@@ -973,7 +973,7 @@
\family typewriter
y
\family default
--components of traction applied at each integration point.
+ components of traction applied at each integration point.
All of the
\family typewriter
.vtk
Modified: short/3D/PyLith/trunk/doc/userguide/tutorials/twotet4/twotet4.lyx
===================================================================
--- short/3D/PyLith/trunk/doc/userguide/tutorials/twotet4/twotet4.lyx 2008-03-17 23:42:44 UTC (rev 11465)
+++ short/3D/PyLith/trunk/doc/userguide/tutorials/twotet4/twotet4.lyx 2008-03-18 00:17:49 UTC (rev 11466)
@@ -138,9 +138,9 @@
.
This file describes the dimensionality of the problem (1D, 2D, or 3D),
the coordinates of the vertices (nodes), the vertices composing each cell
- (element), the material ID to be associated with each cell, and then provides
- groups of vertices that may be used to define faults or surfaces to which
- boundary conditions may be applied.
+ (element), and the material ID to be associated with each cell.
+ It then provides groups of vertices that may be used to define faults or
+ surfaces to which boundary conditions may be applied.
\end_layout
\begin_layout Standard
@@ -495,7 +495,7 @@
\end_layout
\begin_layout Standard
-The next example problem is left-lateral fault slip applied between the
+The next example problem is a left-lateral fault slip applied between the
two tetrahedral cells using kinematic cohesive cells.
The vertices away from the fault are held fixed in the
\family typewriter
@@ -509,7 +509,7 @@
\family typewriter
z
\family default
--directions.
+ directions.
Parameter settings that override or augment those in
\family typewriter
pylithapp.cfg
@@ -602,7 +602,7 @@
dislocation_slip.spatialdb
\family default
) specifies 0.01 m of left-lateral fault slip for the entire fault.
- The data dimension is zero since the same data is applied to all points
+ The data dimension is zero since the same data are applied to all points
in the set.
It is also necessary to specify the peak slip rate, which is done in the
file
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 2008-03-17 23:42:44 UTC (rev 11465)
+++ short/3D/PyLith/trunk/doc/userguide/tutorials/twotet4-geoproj/twotet4-geoproj.lyx 2008-03-18 00:17:49 UTC (rev 11466)
@@ -105,7 +105,7 @@
\begin_layout Standard
This tutorial is virtually identical to the other tutorial using two linear
- tetrahedra (
+ tetrahedra (See Section
\begin_inset LatexCommand ref
reference "sec:Tutorial-Two-tet4"
@@ -302,7 +302,11 @@
First, all of the other tutorials use a Cartesian coordinate system, while
this one uses a geographic coordinate system.
In addition to using different vertex coordinates, we also define the coordinat
-e system for the mesh in pylithapp.cfg:
+e system for the mesh in
+\family typewriter
+pylithapp.cfg
+\family default
+:
\end_layout
\begin_layout LyX-Code
@@ -404,14 +408,25 @@
\family default
data files, and must be changed to the location specified by the user when
the package is installed.
- The package may be obtained from http://structure.harvard.edu/cvm-h.
+ The package may be obtained from
+\begin_inset LatexCommand htmlurl
+name "Harvard's Structural Geology and Tectonics"
+target "structure.harvard.edu/cvm-h"
+
+\end_inset
+
+.
\end_layout
\begin_layout Standard
The final difference with the other examples is in the description of the
spatial databases.
They must also use geographic coordinates.
- Examining dislocation_slip.spatialdb, we find:
+ Examining
+\family typewriter
+dislocation_slip.spatialdb
+\family default
+, we find:
\end_layout
\begin_layout LyX-Code
@@ -467,7 +482,7 @@
\end_layout
\begin_layout Standard
-This example problem is left-lateral fault slip applied between the two
+This example problem is a left-lateral fault slip applied between the two
tetrahedral cells using kinematic cohesive cells.
Note that we vary the amount of fault slip for each vertex with this example,
as described in
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