Contributed by Mattijs Janssens.
1. Any non-blocking data exchange needs to know in advance the sizes to
receive so it can size the buffer. For "halo" exchanges this is not
a problem since the sizes are known in advance but or all other data
exchanges these sizes need to be exchanged in advance.
This was previously done by having all processors send the sizes of data to
send to the master and send it back such that all processors
- had the same information
- all could work out who was sending what to where and hence what needed to
be received.
This is now changed such that we only send the size to the
destination processor (instead of to all as previously). This means
that
- the list of sizes to send is now of size nProcs v.s. nProcs*nProcs before
- we cut out the route to the master and back by using a native MPI
call
It causes a small change to the API of exchange and PstreamBuffers -
they now return the sizes of the local buffers only (a labelList) and
not the sizes of the buffers on all processors (labelListList)
2. Reversing the order of the way in which the sending is done when
scattering information from the master processor to the other
processors. This is done in a tree like fashion. Each processor has a
set of processors to receive from/ send to. When receiving it will
first receive from the processors with the least amount of
sub-processors (i.e. the ones which return first). When sending it
needs to do the opposite: start sending to the processor with the
most amount of sub-tree since this is the critical path.
Patch contributed by Bruno Santos:
- "etc/config.sh/CGAL":
- Indented the contents of the recently added if block.
- Added comment about using system versions.
- Library paths are now only added if the respective version is not "boost-system" and "cgal-system".
- "src/renumber/Allwmake":
It now relies on the previous file to get the version for
Boost (the same way as in "makeCGAL"). This is so that it will also
build "SloanRenumber" if "boost_version" is set to "boost-system".
- "applications/utilities/mesh/generation/Allwmake":
It now also relies on the script "config.sh/CGAL" to get the
version for CGAL. If "cgal_version" is set to "cgal-system", it
will now also build "foamy*Mesh" utilities and respective
libraries.
Resolves report http://www.openfoam.org/mantisbt/view.php?id=1232
The deprecated non-const tmp functionality is now on the compiler switch
NON_CONST_TMP which can be enabled by adding -DNON_CONST_TMP to EXE_INC
in the Make/options file. However, it is recommended to upgrade all
code to the new safer tmp by using the '.ref()' member function rather
than the non-const '()' dereference operator when non-const access to
the temporary object is required.
Please report any problems on Mantis.
Henry G. Weller
CFD Direct.
Moved file path handling to regIOobject and made it type specific so
now every object can have its own rules. Examples:
- faceZones are now processor local (and don't search up anymore)
- timeStampMaster is now no longer hardcoded inside IOdictionary
(e.g. uniformDimensionedFields support it as well)
- the distributedTriSurfaceMesh is properly processor-local; no need
for fileModificationChecking manipulation.
- redistributePar to have almost (complete) functionality of decomposePar+reconstructPar
- low-level distributed Field mapping
- support for mapping surfaceFields (including flipping faces)
- support for decomposing/reconstructing refinement data
ENH: checkMesh: have -writeSets option
- checkMesh has option to write faceSets or (outside of) cellSets as
sampledSurface format. It automatically reconstructs the set on the master
and writes it to the postProcessing folder (as any sampledSurface). E.g.
mpirun -np 6 checkMesh -allTopology -allGeometry -writeSets vtk -parallel
- fixed order writing of symmTensor in Ensight writers
See merge request !8
- checkMesh has option to write faceSets or (outside of) cellSets as
sampledSurface format. It automatically reconstructs the set on the master
and writes it to the postProcessing folder (as any sampledSurface). E.g.
mpirun -np 6 checkMesh -allTopology -allGeometry -writeSets vtk -parallel
- fixed order writing of symmTensor in Ensight writers
- shm: have displacementMotionSolver as alternative mesh shrinker
(instead of medialAxis).
- updated iglooWithFridges tutorial to use displacementLaplacian
- selectable interpolation from cells to points in the motion solvers
using the 'interpolation' keyword:
interpolation volPointInterpolation; // default
or
interpolation patchCorrected (lowerWall upperWall);
- wrapped up mesh shrinkers (see above) for use as a displacementMotionSolver
(i.e. the opposite of the displacementMotionSolver mesh shrinker)
1. multi-ray shooting. It now shoots rays in all the 3 coordinate directions
from the cell centre. Before it would shoot just a single ray from the
nearest point on the surface, going through the cell centre.
There is a cost overhead in that now it shoots 6 rays (+-x, +-y, +-z)
instead of just 1.
2. bleeding of refinement. It marks the cells inside a gap and walks out
the gap-size to neighbouring cells (which are just outside the gap). This
should make for a smoother refinement pattern.
The built-in explicit symplectic integrator has been replaced by a
general framework supporting run-time selectable integrators. Currently
the explicit symplectic, implicit Crank-Nicolson and implicit Newmark
methods are provided, all of which are 2nd-order in time:
Symplectic 2nd-order explicit time-integrator for 6DoF solid-body motion:
Reference:
Dullweber, A., Leimkuhler, B., & McLachlan, R. (1997).
Symplectic splitting methods for rigid body molecular dynamics.
The Journal of chemical physics, 107(15), 5840-5851.
Can only be used for explicit integration of the motion of the body,
i.e. may only be called once per time-step, no outer-correctors may be
applied. For implicit integration with outer-correctors choose either
CrankNicolson or Newmark schemes.
Example specification in dynamicMeshDict:
solver
{
type symplectic;
}
Newmark 2nd-order time-integrator for 6DoF solid-body motion:
Reference:
Newmark, N. M. (1959).
A method of computation for structural dynamics.
Journal of the Engineering Mechanics Division, 85(3), 67-94.
Example specification in dynamicMeshDict:
solver
{
type Newmark;
gamma 0.5; // Velocity integration coefficient
beta 0.25; // Position integration coefficient
}
Crank-Nicolson 2nd-order time-integrator for 6DoF solid-body motion:
The off-centering coefficients for acceleration (velocity integration) and
velocity (position/orientation integration) may be specified but default
values of 0.5 for each are used if they are not specified. With the default
off-centering this scheme is equivalent to the Newmark scheme with default
coefficients.
Example specification in dynamicMeshDict:
solver
{
type CrankNicolson;
aoc 0.5; // Acceleration off-centering coefficient
voc 0.5; // Velocity off-centering coefficient
}
Both the Newmark and Crank-Nicolson are proving more robust and reliable
than the symplectic method for solving complex coupled problems and the
tutorial cases have been updated to utilize this.
In this new framework it would be straight forward to add other methods
should the need arise.
Henry G. Weller
CFD Direct
Refinement:
-----------
// Optionally avoid patch merging - keeps hexahedral cells
// (to be used with automatic refinement/unrefinement)
//mergePatchFaces off;
// Optional multiple locationsInMesh with corresponding optional cellZone
// (automatically generates faceZones inbetween)
locationsInMesh
(
((-0.09 -0.039 -0.049) bottomAir) // cellZone bottomAir
((-0.09 0.009 -0.049) topAir) // cellZone topAir
);
// Optional faceType and patchType specification for these faceZones
faceZoneControls
{
bottomAir_to_topAir
{
faceType baffle;
}
}
/ Optional checking of 'bleeding' of mesh through a specifying a locations
// outside the mesh
locationsOutsideMesh ((0 0 0)(12.3 101.17 3.98));
// Improved refinement: refine all cells with all (or all but one) sides refined
// Improved refinement: refine all cells with opposing faces with different
// refinement level. These cells can happen on multiply curved surfaces.
// Default on, can be switched off with
//interfaceRefine false;
Snapping
--------
// Optional smoothing of points at refinement interfaces. This will reduce
// the non-orthogonality at refinement interfaces.
//nSmoothInternal $nSmoothPatch;
Layering
--------
// Layers can be added to patches or to any side of a faceZone.
// (Any faceZone internally gets represented as two patches)
// The angle to merge patch faces can be set independently of the
// featureAngle. This is especially useful for large feature angles
// Default is the same as the featureAngle.
//mergePatchFacesAngle 45;
// Optional mesh shrinking type 'displacementMotionSolver'. It uses any
// displacementMotionSolver, e.g. displacementSBRStress
// (default is the medial-axis algorithm, 'displacementMedialAxis')
//meshShrinker displacementMotionSolver;
Command-line option handling:
+ If -all specified or no refineMeshDict exists or, refine all cells
+ If -dict <file> specified refine according to <file>
+ If refineMeshDict exists refine according to refineMeshDict
When the refinement or all cells is selected apply 3D refinement for 3D
cases and 2D refinement for 2D cases.
For multi-region cases the default location of blockMeshDict is now system/<region name>
If the blockMeshDict is not found in system then the constant directory
is also checked providing backward-compatibility
The old separate incompressible and compressible libraries have been removed.
Most of the commonly used RANS and LES models have been upgraded to the
new framework but there are a few missing which will be added over the
next few days, in particular the realizable k-epsilon model. Some of
the less common incompressible RANS models have been introduced into the
new library instantiated for incompressible flow only. If they prove to
be generally useful they can be templated for compressible and
multiphase application.
The Spalart-Allmaras DDES and IDDES models have been thoroughly
debugged, removing serious errors concerning the use of S rather than
Omega.
The compressible instances of the models have been augmented by a simple
backward-compatible eddyDiffusivity model for thermal transport based on
alphat and alphaEff. This will be replaced with a separate run-time
selectable thermal transport model framework in a few weeks.
For simplicity and ease of maintenance and further development the
turbulent transport and wall modeling is based on nut/nuEff rather than
mut/muEff for compressible models so that all forms of turbulence models
can use the same wall-functions and other BCs.
All turbulence model selection made in the constant/turbulenceProperties
dictionary with RAS and LES as sub-dictionaries rather than in separate
files which added huge complexity for multiphase.
All tutorials have been updated so study the changes and update your own
cases by comparison with similar cases provided.
Sorry for the inconvenience in the break in backward-compatibility but
this update to the turbulence modeling is an essential step in the
future of OpenFOAM to allow more models to be added and maintained for a
wider range of cases and physics. Over the next weeks and months more
turbulence models will be added of single and multiphase flow, more
additional sub-models and further development and testing of existing
models. I hope this brings benefits to all OpenFOAM users.
Henry G. Weller
To compile with 64bit labels set
WM_LABEL_SIZE=64
in ~/OpenFOAM/dev/prefs.sh
source ~/.bashrc
then Allwmake in OpenFOAM-dev.
This will build into for example OpenFOAM-dev/platforms/linux64ClangDPInt64Opt
If WM_LABEL_SIZE is unset or set to 32:
WM_LABEL_SIZE=32
the build would be placed into OpenFOAM-dev/platforms/linux64ClangDPInt32Opt
Thus both 32bit and 64bit label builds can coexist without problem.
The standard/previous general symmetry type is now named symmetry
both in class and lookup name for consistency. The rigorous
symmetryPlane type is needed for moving-mesh cases in which the
motion it constrained by one or two planes.
1) Modification to extrudeToRegionMesh to use extrudeModel point distribution function
2) Addition of firstCellThickness option to linearNormal extrude model
ENH: foamyHexMesh: do not point motion to cross surfaces
ENH: foamyHexMesh: do not allow perturbation to cross surface
ENH: foamyHexMesh: change inside/outside test to check for nearest intersection
BUG: foamyHexMesh: With surfaces of same priority do not overwrite cell size
ENH: foamyHexMesh: insert surface points on close parallel surfaces
BUG: foamyHexMesh: write to own processor file in parallel
ENH: foamyHexMesh: Insert surface points if internal points are exposed
ENH: foamyHexMesh: add hasBoundaryPoint() to indexedCell
REVERT: foamyHexMesh: do not check inside/outside for surface points
REVERT: foamyHexMesh: correct function argument list
REVERT: foamyHexMesh: correct function argument list
