Initialize at openlb-1-3

54 files changed, 12633 insertions, 0 deletions

diff --git a/src/geometry/MakeHeader b/src/geometry/MakeHeader
new file mode 100644
index 0000000..25442ca
--- /dev/null
+++ b/src/geometry/MakeHeader
@@ -0,0 +1,41 @@
+#  This file is part of the OpenLB library
+#
+#  Copyright (C) 2007 Mathias J. Krause
+#  E-mail contact: info@openlb.net
+#  The most recent release of OpenLB can be downloaded at
+#  <http://www.openlb.net/>
+#
+#  This program is free software; you can redistribute it and/or
+#  modify it under the terms of the GNU General Public License
+#  as published by the Free Software Foundation; either version 2
+#  of the License, or (at your option) any later version.
+#
+#  This program is distributed in the hope that it will be useful,
+#  but WITHOUT ANY WARRANTY; without even the implied warranty of
+#  MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+#  GNU General Public License for more details.
+#
+#  You should have received a copy of the GNU General Public
+#  License along with this program; if not, write to the Free
+#  Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+#  Boston, MA  02110-1301, USA.
+
+
+generic        :=
+
+precompiled    := blockGeometry2D \
+                  blockGeometry3D \
+                  blockGeometryStatistics2D \
+                  blockGeometryStatistics3D \
+                  blockGeometryStructure2D \
+                  blockGeometryStructure3D \
+                  blockGeometryView2D \
+                  blockGeometryView3D \
+                  cuboid2D \
+                  cuboid3D \
+                  cuboidGeometry2D \
+                  cuboidGeometry3D \
+                  superGeometry2D \
+                  superGeometry3D \
+                  superGeometryStatistics2D \
+                  superGeometryStatistics3D
diff --git a/src/geometry/blockGeometry2D.cpp b/src/geometry/blockGeometry2D.cpp
new file mode 100644
index 0000000..7bcadf3
--- /dev/null
+++ b/src/geometry/blockGeometry2D.cpp
@@ -0,0 +1,38 @@
+/*  This file is part of the OpenLB library
+ *
+ *  Copyright (C) 2011 Mathias J. Krause, Simon Zimny
+ *  E-mail contact: info@openlb.net
+ *  The most recent release of OpenLB can be downloaded at
+ *  <http://www.openlb.net/>
+ *
+ *  This program is free software; you can redistribute it and/or
+ *  modify it under the terms of the GNU General Public License
+ *  as published by the Free Software Foundation; either version 2
+ *  of the License, or (at your option) any later version.
+ *
+ *  This program is distributed in the hope that it will be useful,
+ *  but WITHOUT ANY WARRANTY; without even the implied warranty of
+ *  MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ *  GNU General Public License for more details.
+ *
+ *  You should have received a copy of the GNU General Public
+ *  License along with this program; if not, write to the Free
+ *  Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+ *  Boston, MA  02110-1301, USA.
+ */
+
+/** \file
+ * Representation of the 2D block geometry -- template instantiation.
+ */
+
+#include "dynamics/latticeDescriptors.h"
+ 
+#include "blockGeometry2D.h"
+#include "blockGeometry2D.hh"
+
+namespace olb {
+
+template class BlockGeometry2D<double>;
+
+}
+
diff --git a/src/geometry/blockGeometry2D.h b/src/geometry/blockGeometry2D.h
new file mode 100644
index 0000000..fd94523
--- /dev/null
+++ b/src/geometry/blockGeometry2D.h
@@ -0,0 +1,121 @@
+/*  This file is part of the OpenLB library
+ *
+ *  Copyright (C) 2014 Mathias J. Krause
+ *  E-mail contact: info@openlb.net
+ *  The most recent release of OpenLB can be downloaded at
+ *  <http://www.openlb.net/>
+ *
+ *  This program is free software; you can redistribute it and/or
+ *  modify it under the terms of the GNU General Public License
+ *  as published by the Free Software Foundation; either version 2
+ *  of the License, or (at your option) any later version.
+ *
+ *  This program is distributed in the hope that it will be useful,
+ *  but WITHOUT ANY WARRANTY; without even the implied warranty of
+ *  MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ *  GNU General Public License for more details.
+ *
+ *  You should have received a copy of the GNU General Public
+ *  License along with this program; if not, write to the Free
+ *  Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+ *  Boston, MA  02110-1301, USA.
+ */
+
+/** \file
+ * Representation of the 2D block geometry view -- header file.
+ */
+
+#ifndef BLOCK_GEOMETRY_2D_H
+#define BLOCK_GEOMETRY_2D_H
+
+#include <vector>
+#include <list>
+#include "core/blockData2D.h"
+#include "geometry/blockGeometryStatistics2D.h"
+#include "geometry/blockGeometryStructure2D.h"
+#include "geometry/cuboid2D.h"
+
+/// All OpenLB code is contained in this namespace.
+namespace olb {
+
+/// Representation of a block geometry
+/** This class is derived from block geometry structure. It
+ * holds the actual data with the materials. It stores pointers
+ * to all dependent block geometry views.
+ * It presents a volume of voxels where different types are
+ * given my material numbers which is imporant e.g. to work
+ * with different boundaries (like for inflow/output regions).
+ *
+ */
+template<typename T>
+class BlockGeometry2D  final : public BlockData2D<T,int>, public BlockGeometryStructure2D<T> {
+
+private:
+  /// Cuboid which charaterizes the block geometry
+  Cuboid2D<T> _cuboid;
+  /// List to all depending statistic status objects
+  std::list<bool*> _statisticsUpdateNeeded;
+
+public:
+  /// Constructor
+  BlockGeometry2D(T x0, T y0, T h, int nX, int nY, int iCglob=-1);
+  /// Constructor
+  BlockGeometry2D(Cuboid2D<T>& cuboid, int iCglob=-1);
+  /// Copy constructor
+  BlockGeometry2D(BlockGeometry2D const& rhs);
+  /// Copy assignment
+  BlockGeometry2D& operator=(BlockGeometry2D const& rhs);
+
+  /// Returns the underlying block structure
+  BlockStructure2D& getBlockStructure() override;
+
+  /// Write access to the associated block statistic
+  BlockGeometryStatistics2D<T>& getStatistics(bool verbose=true) override;
+  /// Read only access to the associated block statistic
+  BlockGeometryStatistics2D<T> const& getStatistics(bool verbose=true) const override;
+
+  /// Read only access to the origin position given in SI units (meter)
+  Vector<T,2> getOrigin() const override;
+  /// Read only access to the voxel size given in SI units (meter)
+  const T getDeltaR() const override;
+  /// Returns the extend (number of voxels) in X-direction
+  int getNx() const override;
+  /// Returns the extend (number of voxels) in Y-direction
+  int getNy() const override;
+
+  /// Write access to a material number
+  int& get(int iX, int iY) override;  // override BlockGeometryStructure2D::get() by linking to BlockData2D<T,int>::get()
+  /// Read only access to a material number
+  int const& get(int iX, int iY) const override;  // override BlockGeometryStructure2D::get() by linking to BlockData2D<T,int>::get()
+  /// returns the (iX,iY) entry in the 2D scalar field
+  int getMaterial(int iX, int iY) const override; // TODO old
+
+  /// Transforms lattice to physical coordinates (wrapped from cuboid geometry)
+  void getPhysR(T physR[2], const int& iX, const int& iY) const override;
+
+  // returns the raw data field
+  // olb::ScalarField2D<int>* getRawData();
+  // void resize(int X, int Y, int Z, int nX, int nY, int nZ);
+  // refine Mesh
+  // void refineMesh(int level = 2);
+
+  /// Adds a pointer to the list of dependent statistic classes
+  void addToStatisticsList(bool* statisticStatus) override;
+  /// Removes a pointer from the list of dependent statistic classes if existing
+  void removeFromStatisticsList(bool* statisticStatus) override;
+
+  /// Prints a chosen part of the block geometry
+  void printLayer(int x0, int x1, int y0, int y1, bool linenumber = false);
+  /// Prints a chosen part of the block geometry
+  void printLayer(int direction, int layer, bool linenumber = false);
+  /// Prints a chosen node and its neighbourhood
+  void printNode(int x0, int y0);
+
+private:
+  /// Resets all depending statistic flags
+  void resetStatistics();
+};
+
+} // namespace olb
+
+#endif
diff --git a/src/geometry/blockGeometry2D.hh b/src/geometry/blockGeometry2D.hh
new file mode 100644
index 0000000..9b46cdd
--- /dev/null
+++ b/src/geometry/blockGeometry2D.hh
@@ -0,0 +1,288 @@
+/*  This file is part of the OpenLB library
+ *
+ *  Copyright (C) 2011, 2014 Mathias J. Krause, Simon Zimny
+ *  E-mail contact: info@openlb.net
+ *  The most recent release of OpenLB can be downloaded at
+ *  <http://www.openlb.net/>
+ *
+ *  This program is free software; you can redistribute it and/or
+ *  modify it under the terms of the GNU General Public License
+ *  as published by the Free Software Foundation; either version 2
+ *  of the License, or (at your option) any later version.
+ *
+ *  This program is distributed in the hope that it will be useful,
+ *  but WITHOUT ANY WARRANTY; without even the implied warranty of
+ *  MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ *  GNU General Public License for more details.
+ *
+ *  You should have received a copy of the GNU General Public
+ *  License along with this program; if not, write to the Free
+ *  Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+ *  Boston, MA  02110-1301, USA.
+ */
+
+/** \file
+ * Representation of the 2D block geometry -- generic implementation.
+ */
+
+#ifndef BLOCK_GEOMETRY_2D_HH
+#define BLOCK_GEOMETRY_2D_HH
+
+
+#include "geometry/blockGeometry2D.h"
+
+namespace olb {
+
+template<typename T>
+BlockGeometry2D<T>::BlockGeometry2D(T x0, T y0, T h, int nX, int nY, int iCglob)
+  : BlockData2D<T,int>(nX,nY), BlockGeometryStructure2D<T>(iCglob), _cuboid(x0, y0, h, nX, nY)
+{
+  this->_statistics = BlockGeometryStatistics2D<T>(this);
+  addToStatisticsList( &(this->_statistics.getStatisticsStatus()) );
+}
+
+template<typename T>
+BlockGeometry2D<T>::BlockGeometry2D(Cuboid2D<T>& cuboid, int iCglob)
+  : BlockData2D<T,int>(cuboid.getNx(),cuboid.getNy()), BlockGeometryStructure2D<T>(iCglob),
+    _cuboid(cuboid)
+{
+  this->_statistics = BlockGeometryStatistics2D<T>(this);
+  addToStatisticsList( &(this->_statistics.getStatisticsStatus()) );
+}
+
+template<typename T>
+BlockGeometry2D<T>::BlockGeometry2D(BlockGeometry2D const& rhs)
+  : BlockData2D<T,int>(rhs.getNx(), rhs.getNy()), BlockGeometryStructure2D<T>(rhs._iCglob),
+    _cuboid(rhs._cuboid)
+{
+  this->_statistics = BlockGeometryStatistics2D<T>(this);
+  addToStatisticsList( &(this->_statistics.getStatisticsStatus()) );
+}
+
+template<typename T>
+BlockGeometry2D<T>& BlockGeometry2D<T>::operator=(BlockGeometry2D const& rhs)
+{
+  this->_nx = rhs._nx;
+  this->_ny = rhs._ny;
+  this->_iCglob = rhs._iCglob;
+  _cuboid = rhs._cuboid;
+  this->_statistics = BlockGeometryStatistics2D<T>(this);
+  addToStatisticsList( &(this->_statistics.getStatisticsStatus()) );
+  return *this;
+}
+
+template<typename T>
+BlockStructure2D& BlockGeometry2D<T>::getBlockStructure()
+{
+  return *this;
+}
+
+template<typename T>
+BlockGeometryStatistics2D<T>& BlockGeometry2D<T>::getStatistics(bool verbose)
+{
+  return this->_statistics;
+}
+
+template<typename T>
+BlockGeometryStatistics2D<T> const& BlockGeometry2D<T>::getStatistics(bool verbose) const
+{
+  return this->_statistics;
+}
+
+template<typename T>
+Vector<T,2> BlockGeometry2D<T>::getOrigin() const
+{
+  return _cuboid.getOrigin();
+}
+
+template<typename T>
+const T BlockGeometry2D<T>::getDeltaR() const
+{
+  return _cuboid.getDeltaR();
+}
+
+template<typename T>
+int BlockGeometry2D<T>::getNx() const
+{
+  return _cuboid.getNx();
+}
+
+template<typename T>
+int BlockGeometry2D<T>::getNy() const
+{
+  return _cuboid.getNy();
+}
+
+
+template<typename T>
+int& BlockGeometry2D<T>::get(int iX, int iY)
+{
+  resetStatistics();
+  return BlockData2D<T,int>::get(iX,iY);
+}
+
+template<typename T>
+int const& BlockGeometry2D<T>::get(int iX, int iY) const
+{
+  return BlockData2D<T,int>::get(iX,iY);
+}
+
+template<typename T>
+int BlockGeometry2D<T>::getMaterial(int iX, int iY) const
+{
+  int material;
+  if (iX < 0 || iX + 1 > getNx() || iY < 0 || iY + 1 > getNy() ) {
+    material = 0;
+  } else {
+    material = BlockData2D<T,int>::get(iX,iY);
+  }
+  return material;
+}
+
+template<typename T>
+void BlockGeometry2D<T>::getPhysR(T physR[2], const int& iX, const int& iY) const
+{
+  _cuboid.getPhysR(physR, iX, iY);
+  return;
+}
+
+///TODO up, DONE down
+/*
+template<typename T>
+olb::ScalarField3D<int>* BlockGeometry3D<T>::getRawData() {
+  return &_geometryData;
+}*/
+/*
+template<typename T>
+void BlockGeometry3D<T>::resize(int X, int Y, int Z, int nX, int nY, int nZ) {
+  olb::ScalarField3D<int> geometryDataTemp(nX, nY, nZ);
+  geometryDataTemp.construct();
+  geometryDataTemp.reset();
+  for(int iX=0; iX<nX; iX++) {
+    for(int iY=0; iY<nY; iY++) {
+      for(int iZ=0; iZ<nZ; iZ++) {
+        geometryDataTemp.get(iX, iY, iZ)
+          = _geometryData.get(X + iX, Y + iY, Z + iZ);
+      }
+    }
+  }
+  _geometryData.swap(geometryDataTemp);
+  geometryDataTemp.deConstruct();
+}
+*/
+/*
+template<typename T>
+void BlockGeometry3D<T>::refineMesh(int level) {
+
+  // new number of Voxels in X-,Y-,and Z-direction and new spacing
+
+  int _nXnew = level * getNx();
+  int _nYnew = level * getNy();
+  int _nZnew = level * getNz();
+  T _hnew = getDeltaR() / ((T) level);
+
+  olb::ScalarField3D<int> _refinedGeometryData(_nXnew, _nYnew,
+      _nZnew);
+  _refinedGeometryData.construct();
+
+  for (int iX = 0; iX < getNx(); iX++) {
+    for (int iY = 0; iY < getNy(); iY++) {
+      for (int iZ = 0; iZ < getNz(); iZ++) {
+        for (int li = 0; li < level; li++) {
+          for (int lj = 0; lj < level; lj++) {
+            for (int lk = 0; lk < level; lk++) {
+
+              _refinedGeometryData.get(level * iX + li, level
+                                       * iY + lj, level * iZ + lk) = getMaterial(
+                                             iX, iY, iZ);
+
+            }
+          }
+        }
+      }
+    }
+  }
+
+  for (int iX = 0; iX < _nXnew; iX++) {
+    for (int iY = 0; iY < _nYnew; iY++) {
+      for (int iZ = 0; iZ < _nZnew; iZ++) {
+
+        if (iX == 0 || iY == 0 || iZ == 0 || iX == _nXnew - 1 || iY
+            == _nYnew - 1 || iZ == _nZnew - 1)
+          _refinedGeometryData.get(iX, iY, iZ) = 0;
+      }
+    }
+  }
+  reInit(getOrigin()[0], getOrigin()[1], getOrigin()[2], _hnew, _nXnew - 2, _nYnew - 2, _nZnew - 2, this->_iCglob,
+         &_refinedGeometryData);
+}*/
+
+
+template<typename T>
+void BlockGeometry2D<T>::addToStatisticsList(bool* statisticStatus)
+{
+  _statisticsUpdateNeeded.push_back(statisticStatus);
+}
+
+template<typename T>
+void BlockGeometry2D<T>::removeFromStatisticsList(bool* statisticStatus)
+{
+  _statisticsUpdateNeeded.remove(statisticStatus);
+}
+
+
+template<typename T>
+void BlockGeometry2D<T>::printLayer(int x0, int x1, int y0, int y1, bool linenumber)
+{
+  for (int x = x0; x <= x1; x++) {
+    if (linenumber) {
+      this->clout << x << ": ";
+    }
+    for (int y = y0; y <= y1; y++) {
+      this->clout << getMaterial(x, y) << " ";
+    }
+    if (x1 - x0 != 0) {
+      this->clout << std::endl;
+    }
+  }
+  this->clout << std::endl;
+}
+
+template<typename T>
+void BlockGeometry2D<T>::printLayer(int direction, int layer, bool linenumber)
+{
+  assert(direction >= 0 && direction <= 2);
+  switch (direction) {
+  case 0:
+    printLayer(layer, layer, 0, getNy() - 1, linenumber);
+    break;
+  case 1:
+    printLayer(0, getNx() - 1, layer, layer, linenumber);
+    break;
+  }
+}
+
+template<typename T>
+void BlockGeometry2D<T>::printNode(int x0, int y0)
+{
+  for (int x = x0 - 1; x <= x0 + 1; x++) {
+    this->clout << "x=" << x << std::endl;
+    for (int y = y0 - 1; y <= y0 + 1; y++) {
+      this->clout << getMaterial(x, y) << " ";
+    }
+    this->clout << std::endl;
+  }
+  this->clout << std::endl;
+}
+
+template<typename T>
+void BlockGeometry2D<T>::resetStatistics()
+{
+  for (std::list<bool*>::iterator it = _statisticsUpdateNeeded.begin(); it != _statisticsUpdateNeeded.end(); it++) {
+    **it = true;
+  }
+}
+
+} // namespace olb
+
+#endif
diff --git a/src/geometry/blockGeometry3D.cpp b/src/geometry/blockGeometry3D.cpp
new file mode 100644
index 0000000..7f3ca2f
--- /dev/null
+++ b/src/geometry/blockGeometry3D.cpp
@@ -0,0 +1,36 @@
+/*  This file is part of the OpenLB library
+ *
+ *  Copyright (C) 2011 Mathias J. Krause, Simon Zimny
+ *  E-mail contact: info@openlb.net
+ *  The most recent release of OpenLB can be downloaded at
+ *  <http://www.openlb.net/>
+ *
+ *  This program is free software; you can redistribute it and/or
+ *  modify it under the terms of the GNU General Public License
+ *  as published by the Free Software Foundation; either version 2
+ *  of the License, or (at your option) any later version.
+ *
+ *  This program is distributed in the hope that it will be useful,
+ *  but WITHOUT ANY WARRANTY; without even the implied warranty of
+ *  MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ *  GNU General Public License for more details.
+ *
+ *  You should have received a copy of the GNU General Public
+ *  License along with this program; if not, write to the Free
+ *  Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+ *  Boston, MA  02110-1301, USA.
+ */
+
+/** \file
+ * Representation of the 3D block geometry -- template instantiation.
+ */
+
+#include "blockGeometry3D.h"
+#include "blockGeometry3D.hh"
+
+namespace olb {
+
+template class BlockGeometry3D<double>;
+
+}
+
diff --git a/src/geometry/blockGeometry3D.h b/src/geometry/blockGeometry3D.h
new file mode 100644
index 0000000..3d0a401
--- /dev/null
+++ b/src/geometry/blockGeometry3D.h
@@ -0,0 +1,127 @@
+/*  This file is part of the OpenLB library
+ *
+ *  Copyright (C) 2014 Mathias J. Krause
+ *  E-mail contact: info@openlb.net
+ *  The most recent release of OpenLB can be downloaded at
+ *  <http://www.openlb.net/>
+ *
+ *  This program is free software; you can redistribute it and/or
+ *  modify it under the terms of the GNU General Public License
+ *  as published by the Free Software Foundation; either version 2
+ *  of the License, or (at your option) any later version.
+ *
+ *  This program is distributed in the hope that it will be useful,
+ *  but WITHOUT ANY WARRANTY; without even the implied warranty of
+ *  MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ *  GNU General Public License for more details.
+ *
+ *  You should have received a copy of the GNU General Public
+ *  License along with this program; if not, write to the Free
+ *  Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+ *  Boston, MA  02110-1301, USA.
+ */
+
+/** \file
+ * Representation of the 3D block geometry view -- header file.
+ */
+
+#ifndef BLOCK_GEOMETRY_3D_H
+#define BLOCK_GEOMETRY_3D_H
+
+#include <vector>
+#include <list>
+#include "core/blockData3D.h"
+#include "geometry/blockGeometryStatistics3D.h"
+#include "geometry/blockGeometryStructure3D.h"
+#include "geometry/cuboid3D.h"
+
+/// All OpenLB code is contained in this namespace.
+namespace olb {
+
+/// Representation of a block geometry
+/** This class is derived from block geometry structure. It
+ * holds the actual data with the materials. It stores pointers
+ * to all dependent block geometry views.
+ * It presents a volume of voxels where different types are
+ * given by material numbers which is important e.g. to work
+ * with different boundaries (like for inflow/output regions).
+ *
+ * This class is not intended to be derived from.
+ */
+template<typename T>
+class BlockGeometry3D final : public BlockData3D<T,int>, public BlockGeometryStructure3D<T> {
+
+private:
+  /// Cuboid which charaterizes the block geometry
+  Cuboid3D<T> _cuboid;
+  /// List to all depending statistic status objects
+  std::