[cig-commits] commit 2509 by heister to /var/svn/dealii/aspect
dealii.demon at gmail.com
dealii.demon at gmail.com
Sun Apr 13 07:58:16 PDT 2014
Revision 2509
module headers: formatting
U trunk/aspect/doc/modules/0.1-to-0.2.h
U trunk/aspect/doc/modules/0.2-to-0.3.h
U trunk/aspect/doc/modules/changes.h
http://www.dealii.org/websvn/revision.php?repname=Aspect+Repository&path=%2F&rev=2509&peg=2509
Diff:
Modified: trunk/aspect/doc/modules/0.1-to-0.2.h
===================================================================
--- trunk/aspect/doc/modules/0.1-to-0.2.h 2014-04-13 14:53:08 UTC (rev 2508)
+++ trunk/aspect/doc/modules/0.1-to-0.2.h 2014-04-13 14:58:14 UTC (rev 2509)
@@ -1,314 +1,314 @@
/**
* @page changes_between_0.1_and_0.2 Changes between version 0.1 and version 0.2
-
-<p>
-This is the list of changes made after the release of
-Aspect version 0.1 and before 0.2.
-All entries are signed with the names of the author.
-</p>
-
-<ol>
-<li>
-Changed: Some models declared parameters that indicate the names of
-files and that contained underscores. These have been renamed to
-contain dashes instead, to avoid perpetual difficulties in creating
-the manual.
-<br>
-(Timo Heister, 2013/04/28)
-
-<li>
-Fixed: cleanup the various depth_average functions. Fix that
-all quantities got averaged the wrong way if the mesh was
-adaptively refined. Additionally, the velocity_magnitude
-and sinking_velocity was computed incorrectly.
-<br>
-(Timo Heister, 2013/04/28)
-
-<li>
-Fixed: Writing in any output format other than VTU and HDF5 did not
-yield any output files. This is now fixed.
-<br>
-(Wolfgang Bangerth, 2013/04/28)
-
-<li>
-Fixed: There were many places where we indiscriminately used MPI_COMM_WORLD,
-rather than the communicator used for the actual simulation. This is not a
-problem almost all the time, except for cases where Aspect is run as part
-of a bigger simulation.
-<br>
-(Wolfgang Bangerth, 2013/04/28)
-
-<li>
-New: All parts of the code now use the new MaterialModel::evaluate().
-The individual functions like viscosity() got removed. To get an
-old material model to work, you can either move to the new setup
-or derive from InterfaceCompatibility instead of Interface.
-<br>
-(Timo Heister, 2013/04/28)
-
-<li>
-New: Checking whether the end time has been reached is now a regular
-termination criterion plugin. Unlike other plugins, however, it is
-always active.
-<br>
-(Wolfgang Bangerth, 2013/04/28)
-
-<li>
-New: The following plugin subsystems are now documented: mesh refinement
-criteria, termination criteria, and velocity boundary conditions.
-<br>
-(Wolfgang Bangerth, 2013/04/28)
-
-<li>
-New: There is now a new top-level parameter, "Number of cheap Stokes
-solver steps" that allows choosing how many iterations the Stokes
-solver should attempt using the "cheap" preconditioner described in
-the ASPECT paper. In particular, a value of zero indicates that the
-first phase should be skipped altogether. This is a useful strategy for
-problems with strongly varying viscosity for which the cheap preconditioner
-does not help very much and the time used for this first phase is often
-wasted.
-<br>
-(Wolfgang Bangerth, 2013/04/22)
-
-<li>
-Fixed: Entropy exponent stabilization_alpha ("alpha") should be an
-integer, not a double. The recommended setting is the value 2.
-Note that the value 1 is not explained in the ASPECT paper, only
-a value of 2. The various other stabilization parameters have also
-been better explained and cross-referenced to the ASPECT paper.
-<br>
-(Timo Heister, 2013/04/17)
-
-<li>
-Fixed: When running an input file that simply forgot to provide
-names to certain plugins (for example, that does not list anything
-at all for the geometry model), the resulting error message was
-pretty obscure and non-informative. This has now been fixed: the
-error message is much more descriptive and at least says where the
-error may have happened and what the missing parameter is.
-<br>
-(Wolfgang Bangerth, 2013/04/05)
-
-<li>
-New: A postprocessor to output the sparsity pattern of the block
-matrix. Intended mainly for debugging purposes.
-<br>
-(Ted Studley, 2012/12/21)
-
-<li>
-New: a module for specifying termination criteria has been
-added. The first termination criteria is detecting steady
-state RMS velocity. This scheme also allows checkpointing
-the simulation right before termination.
-<br>
-(Eric Heien, 2012/12/11)
-
-<li>
-New: The way we do mesh refinement has been completely rewritten.
-This is now handled via plugins that provide different
-refinement strategies and that can be combined if
-so desired. The names of refinement criteria have also been
-changed: "Temperature", "Velocity", and "Density c_p temperature"
-have been renamed to "temperature", "velocity", and "thermal energy
-density". Furthermore, the effect of the old name "Normalized density
-and temperature" can be obtained by passing the list
-"density, temperature". For more detail, see the manual's section
-on parameters that describe the mesh refinement process.
-<br>
-(Wolfgang Bangerth, 2012/12/08)
-
-<li>
-Fixed: In nonlinear models, we did not recompute the matrix and
-preconditioner for the Stokes system in every time step. This is
-now fixed.
-<br>
-(Wolfgang Bangerth, 2012/12/04)
-
-<li>
-Changed: Write the parameter file only on the root node
-to avoid file system locking issues.
-<br>
-(Eric Heien, 2012/11/28)
-
-<li>
-Changed: Adjusted the stabilization parameters to stabilize
-advection benchmarks without natural diffusion.
-<br>
-(Rene Gassmoeller, 2012/11/16)
-
-<li>
-Changed: Unified the routines for advecting temperature and
-compositional fields. This includes a different scaling for
-the temperature stabilization that may change results.
-<br>
-(Rene Gassmoeller, 2012/11/15)
-
-<li>
-New: If the "Use conduction timestep" parameter is true, the timestep
-is calculated as the minimum of the convection *and* heat conduction
-timesteps. This is to allow models where flow is very slow relative
-to conduction.
-<br>
-(Eric Heien, 2012/11/06)
-
-<li>
-New: Aspect now catches if the output directory specified in
-the parameter file does not exist, rather than providing a
-cryptic error message upon first attempt to write to this
-directory.
-<br>
-(Wolfgang Bangerth, 2012/10/21)
-
-<li>
-New: Material models can now depend on compositional fields.
-<br>
-(Juliane Dannberg, 2012/10/19)
-
-<li>
-New: Introduce compositional fields, that are advected by the velocity.
-<br>
-(Juliane Dannberg, 2012/10/19)
-
-<li>
-New: There is now a plugin that allows using GPlates velocity models
-as input for the velocity boundary conditions.
-<br>
-(Rene Gassmoeller, 2012/10/18)
-
-<li>
-Changed: SimulatorAccess moved from aspect::Postproccessor to aspect:: and
-can be used in material/gravity/... models too. If needed, derive from SimulatorAccess.
-<br>
-(Timo Heister, 2012/09/24)
-
-<li>
-Fixed: Resume does no longer trigger additional refinement times in the past.
-<br>
-(Timo Heister, 2012/09/20)
-
-<li>
-New: Add structures for iterated IMPES and nonlinear solvers.
-<br>
-(Markus Buerg, 2012/09/20)
-
-<li>
-New: InitialCondition::Function for the temperature given in the parameter
-file.
-<br>
-(Timo Heister, 2012/09/17)
-
-<li>
-New: BoundaryTemperature::Box is more flexible because it has parameters
- for the values for all sides of the box.
-<br>
-(Timo Heister, 2012/09/17)
-
-<li>
-New: Added parameter 'Temperature solver tolerance' to control the
-accuracy of the temperature solver.
-<br>
-(Timo Heister, 2012/09/05)
-
-<li>
-New: Added MaterialModel::update() and GravityModel::update() that are
-called before every time step.
-<br>
-(Timo Heister, 2012/09/05)
-
-<li>
-New: Support for HDF5/XDMF visualization output.
-<br>
-(Eric Heien, 2012/08/28)
-
-<li>
-New: It is now possible to select the tolerance for linear
-solvers from the parameter file via the global parameter
-"Linear solver tolerance".
-<br>
-(Wolfgang Bangerth, 2012/06/30)
-
-<li>
-New: Tracer particle postprocesser can write in parallel to HDF5.
-<br>
-(Eric Heien, 2012/06/08)
-
-<li>
-New: Tracer particle postprocessor also outputs
-<code>particle.pvd</code> for ParaView. Tracer particle data may
-also be output to ASCII files for easy parsing and analysis.
-<br>
-(Eric Heien, 2012/06/01)
-
-<li>
-New: Aspect now writes a <code>solution.pvd</code> for Paraview
-that contains a list of the files that jointly make up the entire
-simulation (and not just a single time step) together with the
-simulation time each of the files that describe a time step correspond
-to.
-<br>
-(Wolfgang Bangerth, 2012/05/30)
-
-<li>
-New: It is now selectable how the pressure should be normalized
-(and if it should be normalized at all). If it should be normalized
-at the end of each time step, one can select if the average
-pressure at the top surface, or the average pressure throughout the
-entire domain should be set to a given value (for example to zero).
-<br>
-(Wolfgang Bangerth, 2012/05/15)
-
-<li>
-New: The variables we output in graphical format files are now
-user selectable from the input parameter file. Functions that
-compute something from velocity, pressure and temperature (e.g.,
-the viscosity, strain rate, etc) are now implemented as plugins
-like many of the other parts of Aspect.
-now implemented
-<br>
-(Wolfgang Bangerth, 2012/05/08)
-
-<li>
-Modified: Checkpoint frequency is now a user specified parameter.
-Frequency may be specified as either wall time or number of time steps.
-<br>
-(Eric Heien, 2012/05/04)
-
-<li>
-Modified: Background writing of visualization data now uses the
-mkstemp function rather than forking mktemp, and will continue as
-normal (at lower efficiency) if temporary files cannot be created.
-<br>
-(Eric Heien, 2012/05/03)
-
-<li>
-New: The compressibility that functions implementing the interface
-aspect::MaterialModel::Interface::compressibility() need to return was
-previously defined incorrectly as $ rac{\partial
ho}{\partial p}$.
-This is not what is commonly referred to as compressibility, and
-the function is now supposed to return
-$ rac 1
ho rac{\partial
ho}{\partial p}$ instead, following the
-common definition of the word.
-<br>
-Note that all currently implemented compressible models already did
-that.
-<br>
-(Wolfgang Bangerth, Timo Heister, 2012/05/03)
-
-<li>
-New: The number of space dimensions in which a simulation happens is now
-a parameter that is set in the input parameter filer, rather than
-statically at compile time as before.
-<br>
-(Wolfgang Bangerth, 2012/04/03)
-
-<li>
-New: A postprocessor module for particles was added. This module creates
-a random uniform distribution of particles in the mesh and moves them based
-on the velocity field using an RK2 scheme.
-<br>
-(Eric Heien, 2012/04/02)
-</ol>
-
-
-*/
+ *
+ * <p>
+ * This is the list of changes made after the release of
+ * Aspect version 0.1 and before 0.2.
+ * All entries are signed with the names of the author.
+ * </p>
+ *
+ * <ol>
+ * <li>
+ * Changed: Some models declared parameters that indicate the names of
+ * files and that contained underscores. These have been renamed to
+ * contain dashes instead, to avoid perpetual difficulties in creating
+ * the manual.
+ * <br>
+ * (Timo Heister, 2013/04/28)
+ *
+ * <li>
+ * Fixed: cleanup the various depth_average functions. Fix that
+ * all quantities got averaged the wrong way if the mesh was
+ * adaptively refined. Additionally, the velocity_magnitude
+ * and sinking_velocity was computed incorrectly.
+ * <br>
+ * (Timo Heister, 2013/04/28)
+ *
+ * <li>
+ * Fixed: Writing in any output format other than VTU and HDF5 did not
+ * yield any output files. This is now fixed.
+ * <br>
+ * (Wolfgang Bangerth, 2013/04/28)
+ *
+ * <li>
+ * Fixed: There were many places where we indiscriminately used MPI_COMM_WORLD,
+ * rather than the communicator used for the actual simulation. This is not a
+ * problem almost all the time, except for cases where Aspect is run as part
+ * of a bigger simulation.
+ * <br>
+ * (Wolfgang Bangerth, 2013/04/28)
+ *
+ * <li>
+ * New: All parts of the code now use the new MaterialModel::evaluate().
+ * The individual functions like viscosity() got removed. To get an
+ * old material model to work, you can either move to the new setup
+ * or derive from InterfaceCompatibility instead of Interface.
+ * <br>
+ * (Timo Heister, 2013/04/28)
+ *
+ * <li>
+ * New: Checking whether the end time has been reached is now a regular
+ * termination criterion plugin. Unlike other plugins, however, it is
+ * always active.
+ * <br>
+ * (Wolfgang Bangerth, 2013/04/28)
+ *
+ * <li>
+ * New: The following plugin subsystems are now documented: mesh refinement
+ * criteria, termination criteria, and velocity boundary conditions.
+ * <br>
+ * (Wolfgang Bangerth, 2013/04/28)
+ *
+ * <li>
+ * New: There is now a new top-level parameter, "Number of cheap Stokes
+ * solver steps" that allows choosing how many iterations the Stokes
+ * solver should attempt using the "cheap" preconditioner described in
+ * the ASPECT paper. In particular, a value of zero indicates that the
+ * first phase should be skipped altogether. This is a useful strategy for
+ * problems with strongly varying viscosity for which the cheap preconditioner
+ * does not help very much and the time used for this first phase is often
+ * wasted.
+ * <br>
+ * (Wolfgang Bangerth, 2013/04/22)
+ *
+ * <li>
+ * Fixed: Entropy exponent stabilization_alpha ("alpha") should be an
+ * integer, not a double. The recommended setting is the value 2.
+ * Note that the value 1 is not explained in the ASPECT paper, only
+ * a value of 2. The various other stabilization parameters have also
+ * been better explained and cross-referenced to the ASPECT paper.
+ * <br>
+ * (Timo Heister, 2013/04/17)
+ *
+ * <li>
+ * Fixed: When running an input file that simply forgot to provide
+ * names to certain plugins (for example, that does not list anything
+ * at all for the geometry model), the resulting error message was
+ * pretty obscure and non-informative. This has now been fixed: the
+ * error message is much more descriptive and at least says where the
+ * error may have happened and what the missing parameter is.
+ * <br>
+ * (Wolfgang Bangerth, 2013/04/05)
+ *
+ * <li>
+ * New: A postprocessor to output the sparsity pattern of the block
+ * matrix. Intended mainly for debugging purposes.
+ * <br>
+ * (Ted Studley, 2012/12/21)
+ *
+ * <li>
+ * New: a module for specifying termination criteria has been
+ * added. The first termination criteria is detecting steady
+ * state RMS velocity. This scheme also allows checkpointing
+ * the simulation right before termination.
+ * <br>
+ * (Eric Heien, 2012/12/11)
+ *
+ * <li>
+ * New: The way we do mesh refinement has been completely rewritten.
+ * This is now handled via plugins that provide different
+ * refinement strategies and that can be combined if
+ * so desired. The names of refinement criteria have also been
+ * changed: "Temperature", "Velocity", and "Density c_p temperature"
+ * have been renamed to "temperature", "velocity", and "thermal energy
+ * density". Furthermore, the effect of the old name "Normalized density
+ * and temperature" can be obtained by passing the list
+ * "density, temperature". For more detail, see the manual's section
+ * on parameters that describe the mesh refinement process.
+ * <br>
+ * (Wolfgang Bangerth, 2012/12/08)
+ *
+ * <li>
+ * Fixed: In nonlinear models, we did not recompute the matrix and
+ * preconditioner for the Stokes system in every time step. This is
+ * now fixed.
+ * <br>
+ * (Wolfgang Bangerth, 2012/12/04)
+ *
+ * <li>
+ * Changed: Write the parameter file only on the root node
+ * to avoid file system locking issues.
+ * <br>
+ * (Eric Heien, 2012/11/28)
+ *
+ * <li>
+ * Changed: Adjusted the stabilization parameters to stabilize
+ * advection benchmarks without natural diffusion.
+ * <br>
+ * (Rene Gassmoeller, 2012/11/16)
+ *
+ * <li>
+ * Changed: Unified the routines for advecting temperature and
+ * compositional fields. This includes a different scaling for
+ * the temperature stabilization that may change results.
+ * <br>
+ * (Rene Gassmoeller, 2012/11/15)
+ *
+ * <li>
+ * New: If the "Use conduction timestep" parameter is true, the timestep
+ * is calculated as the minimum of the convection *and* heat conduction
+ * timesteps. This is to allow models where flow is very slow relative
+ * to conduction.
+ * <br>
+ * (Eric Heien, 2012/11/06)
+ *
+ * <li>
+ * New: Aspect now catches if the output directory specified in
+ * the parameter file does not exist, rather than providing a
+ * cryptic error message upon first attempt to write to this
+ * directory.
+ * <br>
+ * (Wolfgang Bangerth, 2012/10/21)
+ *
+ * <li>
+ * New: Material models can now depend on compositional fields.
+ * <br>
+ * (Juliane Dannberg, 2012/10/19)
+ *
+ * <li>
+ * New: Introduce compositional fields, that are advected by the velocity.
+ * <br>
+ * (Juliane Dannberg, 2012/10/19)
+ *
+ * <li>
+ * New: There is now a plugin that allows using GPlates velocity models
+ * as input for the velocity boundary conditions.
+ * <br>
+ * (Rene Gassmoeller, 2012/10/18)
+ *
+ * <li>
+ * Changed: SimulatorAccess moved from aspect::Postproccessor to aspect:: and
+ * can be used in material/gravity/... models too. If needed, derive from SimulatorAccess.
+ * <br>
+ * (Timo Heister, 2012/09/24)
+ *
+ * <li>
+ * Fixed: Resume does no longer trigger additional refinement times in the past.
+ * <br>
+ * (Timo Heister, 2012/09/20)
+ *
+ * <li>
+ * New: Add structures for iterated IMPES and nonlinear solvers.
+ * <br>
+ * (Markus Buerg, 2012/09/20)
+ *
+ * <li>
+ * New: InitialCondition::Function for the temperature given in the parameter
+ * file.
+ * <br>
+ * (Timo Heister, 2012/09/17)
+ *
+ * <li>
+ * New: BoundaryTemperature::Box is more flexible because it has parameters
+ * for the values for all sides of the box.
+ * <br>
+ * (Timo Heister, 2012/09/17)
+ *
+ * <li>
+ * New: Added parameter 'Temperature solver tolerance' to control the
+ * accuracy of the temperature solver.
+ * <br>
+ * (Timo Heister, 2012/09/05)
+ *
+ * <li>
+ * New: Added MaterialModel::update() and GravityModel::update() that are
+ * called before every time step.
+ * <br>
+ * (Timo Heister, 2012/09/05)
+ *
+ * <li>
+ * New: Support for HDF5/XDMF visualization output.
+ * <br>
+ * (Eric Heien, 2012/08/28)
+ *
+ * <li>
+ * New: It is now possible to select the tolerance for linear
+ * solvers from the parameter file via the global parameter
+ * "Linear solver tolerance".
+ * <br>
+ * (Wolfgang Bangerth, 2012/06/30)
+ *
+ * <li>
+ * New: Tracer particle postprocesser can write in parallel to HDF5.
+ * <br>
+ * (Eric Heien, 2012/06/08)
+ *
+ * <li>
+ * New: Tracer particle postprocessor also outputs
+ * <code>particle.pvd</code> for ParaView. Tracer particle data may
+ * also be output to ASCII files for easy parsing and analysis.
+ * <br>
+ * (Eric Heien, 2012/06/01)
+ *
+ * <li>
+ * New: Aspect now writes a <code>solution.pvd</code> for Paraview
+ * that contains a list of the files that jointly make up the entire
+ * simulation (and not just a single time step) together with the
+ * simulation time each of the files that describe a time step correspond
+ * to.
+ * <br>
+ * (Wolfgang Bangerth, 2012/05/30)
+ *
+ * <li>
+ * New: It is now selectable how the pressure should be normalized
+ * (and if it should be normalized at all). If it should be normalized
+ * at the end of each time step, one can select if the average
+ * pressure at the top surface, or the average pressure throughout the
+ * entire domain should be set to a given value (for example to zero).
+ * <br>
+ * (Wolfgang Bangerth, 2012/05/15)
+ *
+ * <li>
+ * New: The variables we output in graphical format files are now
+ * user selectable from the input parameter file. Functions that
+ * compute something from velocity, pressure and temperature (e.g.,
+ * the viscosity, strain rate, etc) are now implemented as plugins
+ * like many of the other parts of Aspect.
+ * now implemented
+ * <br>
+ * (Wolfgang Bangerth, 2012/05/08)
+ *
+ * <li>
+ * Modified: Checkpoint frequency is now a user specified parameter.
+ * Frequency may be specified as either wall time or number of time steps.
+ * <br>
+ * (Eric Heien, 2012/05/04)
+ *
+ * <li>
+ * Modified: Background writing of visualization data now uses the
+ * mkstemp function rather than forking mktemp, and will continue as
+ * normal (at lower efficiency) if temporary files cannot be created.
+ * <br>
+ * (Eric Heien, 2012/05/03)
+ *
+ * <li>
+ * New: The compressibility that functions implementing the interface
+ * aspect::MaterialModel::Interface::compressibility() need to return was
+ * previously defined incorrectly as $ rac{\partial
ho}{\partial p}$.
+ * This is not what is commonly referred to as compressibility, and
+ * the function is now supposed to return
+ * $ rac 1
ho rac{\partial
ho}{\partial p}$ instead, following the
+ * common definition of the word.
+ * <br>
+ * Note that all currently implemented compressible models already did
+ * that.
+ * <br>
+ * (Wolfgang Bangerth, Timo Heister, 2012/05/03)
+ *
+ * <li>
+ * New: The number of space dimensions in which a simulation happens is now
+ * a parameter that is set in the input parameter filer, rather than
+ * statically at compile time as before.
+ * <br>
+ * (Wolfgang Bangerth, 2012/04/03)
+ *
+ * <li>
+ * New: A postprocessor module for particles was added. This module creates
+ * a random uniform distribution of particles in the mesh and moves them based
+ * on the velocity field using an RK2 scheme.
+ * <br>
+ * (Eric Heien, 2012/04/02)
+ * </ol>
+ *
+ *
+ */
Modified: trunk/aspect/doc/modules/0.2-to-0.3.h
===================================================================
--- trunk/aspect/doc/modules/0.2-to-0.3.h 2014-04-13 14:53:08 UTC (rev 2508)
+++ trunk/aspect/doc/modules/0.2-to-0.3.h 2014-04-13 14:58:14 UTC (rev 2509)
@@ -1,33 +1,33 @@
/**
* @page changes_between_0.2_and_0.3 Changes between version 0.2 and version 0.3
-
-<p>
-This is the list of changes made after the release of
-Aspect version 0.2 and before 0.3.
-All entries are signed with the names of the author.
-</p>
-
-<ol>
-<li>
-Changed: To unify spelling, the environment variable that indicates
-the directory in which deal.II is located is now called
-<code>DEAL_II_DIR</code> instead of the old <code>DEAL_DIR</code>. The
-old spelling is still accepted, however.
-<br>
-(Wolfgang Bangerth, 2013/05/31)
-
-<li>
-Fixed: Fix a bug in adiabatic initial conditions introduced in r1599.
-<br>
-(Juliane Dannberg, 2013/05/08)
-
-<li>
-New: The doxygen generated documentation of ASPECT now automatically
-has references to all of the deal.II classes used.
-<br>
-(Wolfgang Bangerth, 2013/05/04)
-
-</ol>
-
-
-*/
+ *
+ * <p>
+ * This is the list of changes made after the release of
+ * Aspect version 0.2 and before 0.3.
+ * All entries are signed with the names of the author.
+ * </p>
+ *
+ * <ol>
+ * <li>
+ * Changed: To unify spelling, the environment variable that indicates
+ * the directory in which deal.II is located is now called
+ * <code>DEAL_II_DIR</code> instead of the old <code>DEAL_DIR</code>. The
+ * old spelling is still accepted, however.
+ * <br>
+ * (Wolfgang Bangerth, 2013/05/31)
+ *
+ * <li>
+ * Fixed: Fix a bug in adiabatic initial conditions introduced in r1599.
+ * <br>
+ * (Juliane Dannberg, 2013/05/08)
+ *
+ * <li>
+ * New: The doxygen generated documentation of ASPECT now automatically
+ * has references to all of the deal.II classes used.
+ * <br>
+ * (Wolfgang Bangerth, 2013/05/04)
+ *
+ * </ol>
+ *
+ *
+ */
Modified: trunk/aspect/doc/modules/changes.h
===================================================================
--- trunk/aspect/doc/modules/changes.h 2014-04-13 14:53:08 UTC (rev 2508)
+++ trunk/aspect/doc/modules/changes.h 2014-04-13 14:58:14 UTC (rev 2509)
@@ -1,409 +1,409 @@
/**
* @page changes_after_0_3 Changes after Version 0.3
-
-<p>
-This is the list of changes made after the release of
-Aspect version 0.3.
-All entries are signed with the names of the author.
-</p>
-
-<ol>
- <li>New: There is now a cookbook describing the
- usage of the GPlates plugin and possible applications.
- The internal velocity representation in the plugin was
- changed to cartesian and a smoothing algorithm was
- introduced.
- <br>
- (Rene Gassmoeller, Wolfgang Bangerth, 2014/04/12)
-
- <li>New: A global parameter ``Maximum time step''
- allows the user to select the largest time step that
- a simulation can take. This may be useful for
- complicated models or benchmarking.
- <br>
- (Ian Rose, Wolfgang Bangerth, 2014/04/12)
-
- <li>Fixed: The simple material model now ignores negative
- compositional values that can occur from numerical undershots
- and even interpolation onto the FE space. This makes the
- cookbook/composition-active.prm work again.
- <br>
- (Timo Heister, 2014/04/08)
-
- <li>New: New options to remove rotational/translational modes
- from the solution.
- <br>
- (Ian Rose, Timo Heister, 2014/04/07)
-
- <li>New: A geometry model implementing a full sphere. There is also
- a corresponding gravity model where gravity increases linearly as you
- move outward.
- <br>
- (Ian Rose, 2014/04/07)
-
- <li>New: The box geometry allows you to specify a repetition
- argument in each coordinate direction.
- <br>
- (Timo Heister, 2014/04/07)
-
- <li>New: On startup, ASPECT now prints out whether it is
- running in debug or optimized mode. This is now part of a general
- status message at the top of every run.
- <br>
- (Wolfgang Bangerth, Juliane Dannberg, 2014/04/7)
-
- <li>Changed: The GPlates plugin for surface velocities always
- interpreted the start time of the model and the time increment
- between individual input files in seconds. It now honors the
- 'Use years in output instead of seconds' flag in the input file.
- <br>
- (Wolfgang Bangerth, Rene Gassmoeller, 2014/04/01)
-
- <li>New: CMake now passes down a preprocessor defined string constant
- called <code>ASPECT_SOURCE_DIR</code> that is set to the (top level)
- directory in which the ASPECT sources are located. This can be used
- by plugins to locate where data files are (e.g., in the <code>data/</code>
- directory of the source tree) independent of where the executable is
- finally called.
- <br>
- (Wolfgang Bangerth, 2014/03/31)
-
- <li>New: The manual now contains a cookbook section that discussed a
- model running in a 3d spherical shell. Movies for this model can
- be found at https://www.youtube.com/channel/UCDTTQ068ablZ8k9J31wNk_Q .
- <br>
- (Wolfgang Bangerth 2014/03/30)
-
- <li>Changed: The 'radial constant' gravity model had a default of
- $30 m/s^2$ for the magnitude of the gravity. This value makes no
- sense. It has therefore been changed to the value we have at
- Earth's surface: $9.81 m/s^2$.
- <br>
- (Wolfgang Bangerth, 2014/03/29)
-
- <li>Fixed: Correct computation of min/max composition statistics.
- <br>
- (Timo Heister, 2014/03/26)
-
- <li>Fixed: Corrected calculation of non-dimensional temperature in the
- temperature statistics postprocessor plugin.
- <br>
- (Eric Heien, 2014/03/24)
-
- <li>Fixed: Restarting from a previously checkpointed solution
- did not work when using the Intel compiler and its standard library.
- This is now fixed.
- <br>
- (Wolfgang Bangerth, Jacqueline Austermann 2014/03/21)
-
- <li>New: There is now a postprocessor that computes a measure of
- dynamic topography, based on the vertical component of the stress.
- There is also a visualization postprocessor that allows to write this
- information into the visualization files to generate graphical
- representations of the data.
- <br>
- (Wolfgang Bangerth, Jacqueline Austermann 2014/03/20)
-
- <li>New: Aspect now installs a file <code>AspectConfig.cmake</code>
- into the same directory as the executable that can be used by
- plugins to set up compiler flags, include paths, etc, to compile
- a set of source files into a shared library that can then be
- loaded at run time from the input file. See the manual for more
- information about this mechanism.
- <br>
- (Matthias Maier, Wolfgang Bangerth 2014/03/03)
-
- <li>New: The manual now contains a cookbook section introducing a
- model that runs in a two-dimensional annulus.
- <br>
- (Wolfgang Bangerth 2014/02/17)
-
- <li>New: When running long simulations, the output generated by
- the "depth average" postprocessor can become messy and hard
- to visualize in the format previously used because it was,
- essentially, just a text based table. The data is now written
- into a file, named <code>depth_average.ext</code> in the
- output directory, in any of the output formats supported
- by deal.II, where <code>ext</code> is the matching file
- name extension for the format. This allows visualization
- as a time-depth plot. The format is selected in the input
- file, along with a number of other settings.
- <br>
- (Wolfgang Bangerth 2014/02/16)
-
- <li>New: The "depth average" postprocessor now takes a run-time
- parameter in the "Postprocess/Depth average" section of the input
- file that specifies into how many depth slices the domain should
- be subdivided in computing depth averages.
- <br>
- (Wolfgang Bangerth 2014/02/14)
-
- <li>Fixed: The "depth average" postprocessor did not honor the
- "Use years in output instead of seconds" parameter in the input
- file and instead always printed time in seconds when generating
- output. This is now fixed.
- <br>
- (Wolfgang Bangerth 2014/02/11)
-
- <li>New: The "Simple setups" section of the manual now has a subsection
- detailing the generalization of the "Convection in a box" setup to
- a three-dimensional situation. This includes links to the movies
- already available http://www.youtube.com/watch?v=_bKqU_P4j48 and
- http://www.youtube.com/watch?v=CzCKYyR-cmg .
- <br>
- (Wolfgang Bangerth 2014/01/29)
-
- <li>New: The manual has a new subsection at the top of the "Cookbooks"
- section providing a bit of an outline of how one sets up situations.
- <br>
- (Wolfgang Bangerth 2014/01/29)
-
- <li>New: Linear algebra can be done using PETSc instead of Trilinos. For
- this, deal.II needs to be configured with PETSc and the preprocessor
- define <code>USE_PETSC</code>
- needs to be set in the Aspect file <code>include/aspect/global.h</code> before
- compiling. This feature is still experimental.
- <br>
- (Timo Heister, Ian Rose 2014/01/21)
-
- <li>Fixed: On systems where one needs to link executables statically
- (for example on big clusters), it is not possible to load additional
- plugins via external shared libraries. This is now disabled and any
- attempt to do so will lead to a run-time error.
- <br>
- (Rene Gassmoeller, Wolfgang Bangerth 2014/01/10)
-
- <li>New: There is now a section in the manual that describes how to
- reproduce the van Keken et al. benchmark.
- <br>
- (Cedric Thieulot, Juliane Dannberg,
- Timo Heister, Wolfgang Bangerth 2014/01/10)
-
- <li>Fixed: Using the 'density', 'nonadiabatic temperature', 'thermal
- energy' or 'viscosity' mesh refinement criterion for parallel computations
- led to meshes that made no sense. This was due to a bug in deal.II, not
- Aspect, and has been fixed starting with deal.II 8.1. Using this version
- of deal.II now also fixes the problem in Aspect.
- <br>
- (Wolfgang Bangerth 2013/12/18)
-
- <li>Fixed: The 'temperature statistics' postprocessor put a column
- 'Average nondimensional temperature (K)' into the statistics file that
- was computed as the average temperature divided by the maximal temperature
- at the boundary. This made no sense if the maximal temperature at the
- boundary was zero or if the minimal temperature was nonzero. In fact,
- it also made no sense if the temperature at the boundary was not prescribed.
- This is now fixed: the column is computed as the ratio of the average temperature
- divided by the <i>difference</i> between maximal and minimal temperature,
- and it is omitted altogether if the temperature is not prescribed on any
- part of the boundary or if the difference between minimal and maximal
- prescribed boundary is zero.
- <br>
- (Wolfgang Bangerth 2013/12/05)
-
- <li>New: There is now a run time parameter that indices the minimal
- refinement level of the mesh.
- <br>
- (Juliane Dannberg 2013/12/03)
-
- <li>New: The 'composition' mesh refinement criterion now allows to scale
- the various compositional fields differently, through parameters given
- in the input file.
- <br>
- (Juliane Dannberg 2013/12/03)
-
- <li>New: There are now two new mesh refinement criteria: 'nonadiabatic
- temperature' refines based on the nonadiabatic part of the temperature
- field; 'viscosity' refines based on the viscosity considered as a spatially
- variable field.
- <br>
- (Juliane Dannberg 2013/12/03)
-
- <li>Fixed: When using adiabatic initial conditions with a shell geometry and
- an opening angle of 90 degrees, the perturbation was not located where it
- was supposed to be. This is now fixed.
- <br>
- (Juliane Dannberg 2013/12/02)
-
- <li>New: There are now boundary temperature and boundary composition models
- that simply use the initial temperature and composition as the values
- that should hold at the boundary for all future times.
- <br>
- (Juliane Dannberg 2013/12/02)
-
- <li>New: Material models can now include reactions between compositional
- species.
- <br>
- (Juliane Dannberg 2013/12/01)
-
- <li>Fixed: The shear heating term $2\eta \left( arepsilon(\mathbf u)-
- rac 13 ( extrm{div}\; \mathbf u)I
ight):\left( arepsilon(\mathbf u)-
- rac 13 ( extrm{div}\; \mathbf u)I
ight)$ was computed wrongly for
- compressible models for which the divergence of the velocity field is
- nonzero. This is now fixed.
- <br>
- (Wolfgang Bangerth 2013/11/25)
-
- <li>Fixed: The composition and temperature statistics postprocessors
- incorrectly computed the maximal compositional values and maximal
- temperature if this maximum was less than or equal to zero. This
- is now fixed.
- <br>
- (Wolfgang Bangerth 2013/11/25)
-
- <li>New: One can now select in the input file that the model should
- include latent heat. The generation of latent heat then needs to be
- described in the material model.
- <br>
- (Juliane Dannberg 2013/11/24)
-
- <li>New: It is now possible to prescribe boundary values for
- compositional fields in cases where there is inflow through
- a segment of the boundary. This is implemented through a set
- of plugins for boundary values in the same way as is done for
- temperature boundary values.
- <br>
- (Juliane Dannberg 2013/11/24)
-
- <li>New: There is now a refinement criterion "topography" that makes sure
- the mesh is always refined at the surface of the domain.
- <br>
- (Juliane Dannberg 2013/11/24)
-
- <li>Fixed: When using compressible models with nonlinear iterations
- such as "Stokes", "iterated IMPES" or "iterated Stokes" and prescribed
- boundary values, there were numerous bugs that should now be fixed.
- <br>
- (Wolfgang Bangerth 2013/11/21)
-
- <li>Changed: When the user selects to terminate by end time, the
- final time step is adjusted to hit the final time exactly.
- <br>
- (Ryan Grove 2013/11/19)
-
- <li>Fixed: When using compressible models, we fixed up the right hand side
- vector in a way so that the mean divergence is zero (even though it is of
- course locally nonzero due to the compressibility). This is necessary to ensure
- the solvability of the linear system, but it is wrong if the domain has open
- boundaries through which fluid can escape or enter. We now only perform
- this correction if there are no open boundaries and no boundaries with a
- prescribed velocity.
- <br>
- (Wolfgang Bangerth 2013/11/19)
-
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