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

- 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

- 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

- 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

surfaceBooleanFeatures: use CGAL for intersection
surfaceCheck: write surface zoning as vtk file
surfaceInflate: new utility to offset surface
surfacePatch: replacement for surfaceAutoPatch. Also does cutting of surfaces.

XiDyMFoam               : compressible version of XiFoam
oscillatingCylinder     : 2D case with cylinder moving up and down
annularCombustorTurbine : part of 3D combuster using cyclicPeriodicAMI

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The built-in explicit symplectic integrator has been replaced by a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-i...

Ur can be generated using a functionObject or in the post-processor

Resolves bug-report http://www.openfoam.org/mantisbt/view.php?id=1868

Resolves bug-report http://www.openfoam.org/mantisbt/view.php?id=1872

mattijs authored 9 years ago and Andrew Heather committed 9 years ago

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;

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;

to use the transport matrix construction in MovingPhaseModel

Patches provided by Bruno Santos
Resolves feature-request http://www.openfoam.org/mantisbt/view.php?id=1861

Now consistent with constructors.

Resolves bug-report http://www.openfoam.org/mantisbt/view.php?id=1227
Patch provided by Bruno Santos

between incompressible and compressible phases

Now combinations of incompressible, compressible phases with or without
mass-transfer are supported efficiently.

This file contains definitions rather than declarations

This makes looping over the phases much simpler which maintaining
support for phase-name lookup.

PtrListDictionary: New form of Dictionary in which the list type is PtrList rather than a linked-list

Supporting any number of phases with heat and mass transfer, phase-change and reactions

Provided by Bruno Santos
Resolves report http://www.openfoam.org/mantisbt/view.php?id=1767

Provided by Bruno Santos
Resolves report http://www.openfoam.org/mantisbt/view.php?id=1848

Patch provided by Daniel Jasinski
Resolved bug-report http://www.openfoam.org/mantisbt/view.php?id=1843