Initialize at openlb-1-3

6 files changed, 527 insertions, 0 deletions

diff --git a/examples/laminar/cylinder3d/Makefile b/examples/laminar/cylinder3d/Makefile
new file mode 100644
index 0000000..a953954
--- /dev/null
+++ b/examples/laminar/cylinder3d/Makefile
@@ -0,0 +1,105 @@
+#  This file is part of the OpenLB library
+#
+#  Copyright (C) 2007 Mathias 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.
+
+###########################################################################
+## definitions
+
+include definitions.mk
+
+include $(ROOT)/global.mk
+
+OBJECTS    := $(foreach file, $(SRC), $(PWD)/$(file:.cpp=.o))
+DEPS       := $(foreach file, $(SRC), $(PWD)/$(file:.cpp=.d))
+
+###########################################################################
+## all
+
+all : depend compile link
+
+
+###########################################################################
+## dependencies
+
+depend : $(DEPS)
+
+$(PWD)/%.d : %.cpp
+	@echo Create dependencies for $<
+	@$(SHELL) -ec '$(CXX) -M $(CXXFLAGS) $(IDIR) $< \
+                       | sed -e "s!$*\.o!$(PWD)\/$*\.o!1" > .tmpfile; \
+                       cp -f .tmpfile $@;'
+
+###########################################################################
+## compile
+
+compile : $(OBJECTS)
+
+$(PWD)/%.o: %.cpp
+	@echo Compile $<
+	$(CXX) $(CXXFLAGS) $(IDIR) -c $< -o $@
+
+###########################################################################
+## clean
+
+clean : cleanrub cleanobj cleandep
+
+cleanrub:
+	@echo Clean rubbish files
+	@rm -f *~ core .tmpfile tmp/*.* $(OUTPUT)
+	@rm -f tmp/vtkData/*.* tmp/vtkData/data/*.* tmp/imageData/*.* tmp/gnuplotData/*.* tmp/gnuplotData/data/*.*
+
+cleanobj:
+	@echo Clean object files
+	@rm -f $(OBJECTS)
+
+cleandep:
+	@echo Clean dependencies files
+	@rm -f $(DEPS)
+
+cleanbuild:
+	@cd $(ROOT); \
+	 $(MAKE) cleanlib;
+
+###########################################################################
+## update lib
+
+$(ROOT)/$(LIBDIR)/lib$(LIB).a :
+	@cd $(ROOT); \
+	$(MAKE) all
+
+###########################################################################
+## link
+
+link: $(OUTPUT)
+
+$(OUTPUT): $(OBJECTS) $(ROOT)/$(LIBDIR)/lib$(LIB).a
+	@echo Link $@
+	$(CXX) $(foreach file, $(SRC), $(file:.cpp=.o)) $(LDFLAGS) -L$(ROOT)/$(LIBDIR) -l$(LIB) -lz -o $@
+
+###########################################################################
+## include dependencies
+
+ifneq "$(strip $(wildcard *.d))" ""
+   include $(foreach file,$(DEPS),$(file))
+endif
+
+###########################################################################
+###########################################################################
diff --git a/examples/laminar/cylinder3d/cylinder3d.cpp b/examples/laminar/cylinder3d/cylinder3d.cpp
new file mode 100644
index 0000000..a21c646
--- /dev/null
+++ b/examples/laminar/cylinder3d/cylinder3d.cpp
@@ -0,0 +1,363 @@
+/*  Lattice Boltzmann sample, written in C++, using the OpenLB
+ *  library
+ *
+ *  Copyright (C) 2011-2013 Mathias J. Krause, Thomas Henn, Tim Dornieden
+ *  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.
+ */
+
+/* cylinder3d.cpp:
+ * This example examines a steady flow past a cylinder placed in a channel.
+ * The cylinder is offset somewhat from the center of the flow to make the
+ * steady-state symmetrical flow unstable. At the inlet, a Poiseuille profile is
+ * imposed on the velocity, whereas the outlet implements a Dirichlet pressure
+ * condition set by p = 0.
+ * Inspired by "Benchmark Computations of Laminar Flow Around
+ * a Cylinder" by M.Schäfer and S.Turek. For high resolution, low
+ * latticeU, and enough time to converge, the results for pressure drop, drag
+ * and lift lie within the estimated intervals for the exact results.
+ * An unsteady flow with Karman vortex street can be created by changing the
+ * Reynolds number to Re=100.
+ * It also shows the usage of the STL-reader and explains how
+ * to set boundary conditions automatically.
+ */
+
+
+#include "olb3D.h"
+#ifndef OLB_PRECOMPILED // Unless precompiled version is used,
+#include "olb3D.hh"   // include full template code
+#endif
+#include <vector>
+#include <cmath>
+#include <iostream>
+#include <fstream>
+
+using namespace olb;
+using namespace olb::descriptors;
+using namespace olb::graphics;
+using namespace olb::util;
+using namespace std;
+
+typedef double T;
+#define DESCRIPTOR D3Q19<>
+
+
+// Parameters for the simulation setup
+const int N = 10;        // resolution of the model
+const T Re = 20.;       // Reynolds number
+const T maxPhysT = 16.; // max. simulation time in s, SI unit
+
+
+// Stores data from stl file in geometry in form of material numbers
+void prepareGeometry( UnitConverter<T,DESCRIPTOR> const& converter, IndicatorF3D<T>& indicator,
+                      STLreader<T>& stlReader, SuperGeometry3D<T>& superGeometry ) {
+
+  OstreamManager clout( std::cout,"prepareGeometry" );
+  clout << "Prepare Geometry ..." << std::endl;
+
+  superGeometry.rename( 0,2,indicator );
+  superGeometry.rename( 2,1,stlReader );
+  superGeometry.clean();
+
+  Vector<T,3> origin = superGeometry.getStatistics().getMinPhysR( 2 );
+  origin[1] += converter.getConversionFactorLength()/2.;
+  origin[2] += converter.getConversionFactorLength()/2.;
+
+  Vector<T,3> extend = superGeometry.getStatistics().getMaxPhysR( 2 );
+  extend[1] = extend[1]-origin[1]-converter.getConversionFactorLength()/2.;
+  extend[2] = extend[2]-origin[2]-converter.getConversionFactorLength()/2.;
+
+  // Set material number for inflow
+  origin[0] = superGeometry.getStatistics().getMinPhysR( 2 )[0]-converter.getConversionFactorLength();
+  extend[0] = 2*converter.getConversionFactorLength();
+  IndicatorCuboid3D<T> inflow( extend,origin );
+  superGeometry.rename( 2,3,inflow );
+
+  // Set material number for outflow
+  origin[0] = superGeometry.getStatistics().getMaxPhysR( 2 )[0]-converter.getConversionFactorLength();
+  extend[0] = 2*converter.getConversionFactorLength();
+  IndicatorCuboid3D<T> outflow( extend,origin );
+  superGeometry.rename( 2,4,outflow );
+
+  // Set material number for cylinder
+  origin[0] = superGeometry.getStatistics().getMinPhysR( 2 )[0]+converter.getConversionFactorLength();
+  extend[0] = ( superGeometry.getStatistics().getMaxPhysR( 2 )[0]-superGeometry.getStatistics().getMinPhysR( 2 )[0] )/2.;
+  IndicatorCuboid3D<T> cylinder( extend,origin );
+  superGeometry.rename( 2,5,cylinder );
+
+  // Removes all not needed boundary voxels outside the surface
+  superGeometry.clean();
+  superGeometry.checkForErrors();
+
+  superGeometry.print();
+
+  clout << "Prepare Geometry ... OK" << std::endl;
+}
+
+// Set up the geometry of the simulation
+void prepareLattice( SuperLattice3D<T,DESCRIPTOR>& sLattice,
+                     UnitConverter<T,DESCRIPTOR> const& converter,
+                     Dynamics<T, DESCRIPTOR>& bulkDynamics,
+                     sOnLatticeBoundaryCondition3D<T,DESCRIPTOR>& bc,
+                     sOffLatticeBoundaryCondition3D<T,DESCRIPTOR>& offBc,
+                     STLreader<T>& stlReader,
+                     SuperGeometry3D<T>& superGeometry ) {
+
+  OstreamManager clout( std::cout,"prepareLattice" );
+  clout << "Prepare Lattice ..." << std::endl;
+
+  const T omega = converter.getLatticeRelaxationFrequency();
+
+  // Material=0 -->do nothing
+  sLattice.defineDynamics( superGeometry, 0, &instances::getNoDynamics<T, DESCRIPTOR>() );
+
+  // Material=1 -->bulk dynamics
+  // Material=3 -->bulk dynamics (inflow)
+  // Material=4 -->bulk dynamics (outflow)
+  auto bulkIndicator = superGeometry.getMaterialIndicator({1, 3, 4});
+  sLattice.defineDynamics( bulkIndicator, &bulkDynamics );
+
+  // Material=2 -->bounce back
+  sLattice.defineDynamics( superGeometry, 2, &instances::getBounceBack<T, DESCRIPTOR>() );
+
+  // Setting of the boundary conditions
+  bc.addVelocityBoundary( superGeometry, 3, omega );
+  bc.addPressureBoundary( superGeometry, 4, omega );
+
+  // Material=5 -->bouzidi
+  sLattice.defineDynamics( superGeometry, 5, &instances::getNoDynamics<T,DESCRIPTOR>() );
+  offBc.addZeroVelocityBoundary( superGeometry, 5, stlReader );
+
+  // Initial conditions
+  AnalyticalConst3D<T,T> rhoF( 1 );
+  Vector<T,3> velocityV;
+  AnalyticalConst3D<T,T> uF(velocityV);
+
+  // Initialize all values of distribution functions to their local equilibrium
+  sLattice.defineRhoU( bulkIndicator, rhoF, uF );
+  sLattice.iniEquilibrium( bulkIndicator, rhoF, uF );
+
+  // Make the lattice ready for simulation
+  sLattice.initialize();
+
+  clout << "Prepare Lattice ... OK" << std::endl;
+}
+
+// Generates a slowly increasing inflow for the first iTMaxStart timesteps
+void setBoundaryValues( SuperLattice3D<T, DESCRIPTOR>& sLattice,
+                        UnitConverter<T,DESCRIPTOR> const& converter, int iT,
+                        SuperGeometry3D<T>& superGeometry ) {
+
+  OstreamManager clout( std::cout,"setBoundaryValues" );
+
+  // No of time steps for smooth start-up
+  int iTmaxStart = converter.getLatticeTime( maxPhysT*0.4 );
+  int iTupdate = 30;
+
+  if ( iT%iTupdate == 0 && iT <= iTmaxStart ) {
+    // Smooth start curve, sinus
+    // SinusStartScale<T,int> StartScale(iTmaxStart, T(1));
+
+    // Smooth start curve, polynomial
+    PolynomialStartScale<T,int> StartScale( iTmaxStart, T( 1 ) );
+
+    // Creates and sets the Poiseuille inflow profile using functors
+    int iTvec[1] = {iT};
+    T frac[1] = {};
+    StartScale( frac,iTvec );
+    std::vector<T> maxVelocity( 3,0 );
+    maxVelocity[0] = 2.25*frac[0]*converter.getCharLatticeVelocity();
+
+    T distance2Wall = converter.getConversionFactorLength()/2.;
+    RectanglePoiseuille3D<T> poiseuilleU( superGeometry, 3, maxVelocity, distance2Wall, distance2Wall, distance2Wall );
+    sLattice.defineU( superGeometry, 3, poiseuilleU );
+
+    clout << "step=" << iT << "; maxVel=" << maxVelocity[0] << std::endl;
+  }
+}
+
+// Computes the pressure drop between the voxels before and after the cylinder
+void getResults( SuperLattice3D<T, DESCRIPTOR>& sLattice,
+                 UnitConverter<T,DESCRIPTOR> const& converter, int iT,
+                 SuperGeometry3D<T>& superGeometry, Timer<T>& timer,
+                 STLreader<T>& stlReader ) {
+
+  OstreamManager clout( std::cout,"getResults" );
+
+  SuperVTMwriter3D<T> vtmWriter( "cylinder3d" );
+  SuperLatticePhysVelocity3D<T, DESCRIPTOR> velocity( sLattice, converter );
+  SuperLatticePhysPressure3D<T, DESCRIPTOR> pressure( sLattice, converter );
+  SuperLatticeYplus3D<T, DESCRIPTOR> yPlus( sLattice, converter, superGeometry, stlReader, 5 );
+  vtmWriter.addFunctor( velocity );
+  vtmWriter.addFunctor( pressure );
+  vtmWriter.addFunctor( yPlus );
+
+  const int vtkIter  = converter.getLatticeTime( .3 );
+  const int statIter = converter.getLatticeTime( .1 );
+
+  if ( iT==0 ) {
+    // Writes the geometry, cuboid no. and rank no. as vti file for visualization
+    SuperLatticeGeometry3D<T, DESCRIPTOR> geometry( sLattice, superGeometry );
+    SuperLatticeCuboid3D<T, DESCRIPTOR> cuboid( sLattice );
+    SuperLatticeRank3D<T, DESCRIPTOR> rank( sLattice );
+    vtmWriter.write( geometry );
+    vtmWriter.write( cuboid );
+    vtmWriter.write( rank );
+
+    vtmWriter.createMasterFile();
+  }
+
+  // Writes the vtk files
+  if ( iT%vtkIter == 0 ) {
+    vtmWriter.write( iT );
+
+    SuperEuklidNorm3D<T, DESCRIPTOR> normVel( velocity );
+    BlockReduction3D2D<T> planeReduction( normVel, {0, 0, 1} );
+    // write output as JPEG
+    heatmap::write(planeReduction, iT);
+  }
+
+  // Writes output on the console
+  if ( iT%statIter == 0 ) {
+    // Timer console output
+    timer.update( iT );
+    timer.printStep();
+
+    // Lattice statistics console output
+    sLattice.getStatistics().print( iT,converter.getPhysTime( iT ) );
+
+    // Drag, lift, pressure drop
+    AnalyticalFfromSuperF3D<T> intpolatePressure( pressure, true );
+    SuperLatticePhysDrag3D<T,DESCRIPTOR> drag( sLattice, superGeometry, 5, converter );
+
+    std::vector<T> point1V = superGeometry.getStatistics().getCenterPhysR( 5 );
+    std::vector<T> point2V = superGeometry.getStatistics().getCenterPhysR( 5 );
+    T point1[3] = {};
+    T point2[3] = {};
+    for ( int i = 0; i<3; i++ ) {
+      point1[i] = point1V[i];
+      point2[i] = point2V[i];
+    }
+    point1[0] = superGeometry.getStatistics().getMinPhysR( 5 )[0] - converter.getConversionFactorLength();
+    point2[0] = superGeometry.getStatistics().getMaxPhysR( 5 )[0] + converter.getConversionFactorLength();
+
+    T p1, p2;
+    intpolatePressure( &p1,point1 );
+    intpolatePressure( &p2,point2 );
+
+    clout << "pressure1=" << p1;
+    clout << "; pressure2=" << p2;
+
+    T pressureDrop = p1-p2;
+    clout << "; pressureDrop=" << pressureDrop;
+
+    T dragA[3];
+    int input1[0];
+    drag( dragA, input1 );
+    clout << "; drag=" << dragA[0] << "; lift=" << dragA[1] << endl;
+
+    int input[4] = {};
+    SuperMax3D<T> yPlusMaxF( yPlus, superGeometry, 1 );
+    T yPlusMax[1];
+    yPlusMaxF( yPlusMax,input );
+    clout << "yPlusMax=" << yPlusMax[0] << endl;
+  }
+}
+
+int main( int argc, char* argv[] ) {
+
+  // === 1st Step: Initialization ===
+  olbInit( &argc, &argv );
+  singleton::directories().setOutputDir( "./tmp/" );
+  OstreamManager clout( std::cout,"main" );
+  // display messages from every single mpi process
+  //clout.setMultiOutput(true);
+
+  UnitConverterFromResolutionAndRelaxationTime<T, DESCRIPTOR> const converter(
+    int {N},              // resolution: number of voxels per charPhysL
+    (T)   0.53,           // latticeRelaxationTime: relaxation time, have to be greater than 0.5!
+    (T)   0.1,            // charPhysLength: reference length of simulation geometry
+    (T)   0.2,            // charPhysVelocity: maximal/highest expected velocity during simulation in __m / s__
+    (T)   0.2*2.*0.05/Re, // physViscosity: physical kinematic viscosity in __m^2 / s__
+    (T)   1.0             // physDensity: physical density in __kg / m^3__
+  );
+  // Prints the converter log as console output
+  converter.print();
+  // Writes the converter log in a file
+  converter.write("cylinder3d");
+
+
+  // === 2nd Step: Prepare Geometry ===
+
+  // Instantiation of the STLreader class
+  // file name, voxel size in meter, stl unit in meter, outer voxel no., inner voxel no.
+  STLreader<T> stlReader( "cylinder3d.stl", converter.getConversionFactorLength(), 0.001 );
+  IndicatorLayer3D<T> extendedDomain( stlReader, converter.getConversionFactorLength() );
+
+  // Instantiation of a cuboidGeometry with weights
+#ifdef PARALLEL_MODE_MPI
+  const int noOfCuboids = singleton::mpi().getSize();
+#else
+  const int noOfCuboids = 7;
+#endif
+  CuboidGeometry3D<T> cuboidGeometry( extendedDomain, converter.getConversionFactorLength(), noOfCuboids );
+
+  // Instantiation of a loadBalancer
+  HeuristicLoadBalancer<T> loadBalancer( cuboidGeometry );
+
+  // Instantiation of a superGeometry
+  SuperGeometry3D<T> superGeometry( cuboidGeometry, loadBalancer, 2 );
+
+  prepareGeometry( converter, extendedDomain, stlReader, superGeometry );
+
+  // === 3rd Step: Prepare Lattice ===
+  SuperLattice3D<T, DESCRIPTOR> sLattice( superGeometry );
+  BGKdynamics<T, DESCRIPTOR> bulkDynamics( converter.getLatticeRelaxationFrequency(), instances::getBulkMomenta<T, DESCRIPTOR>() );
+
+  // choose between local and non-local boundary condition
+  sOnLatticeBoundaryCondition3D<T,DESCRIPTOR> sBoundaryCondition( sLattice );
+  createInterpBoundaryCondition3D<T,DESCRIPTOR>( sBoundaryCondition );
+  // createLocalBoundaryCondition3D<T,DESCRIPTOR>(sBoundaryCondition);
+
+  sOffLatticeBoundaryCondition3D<T, DESCRIPTOR> sOffBoundaryCondition( sLattice );
+  createBouzidiBoundaryCondition3D<T, DESCRIPTOR> ( sOffBoundaryCondition );
+
+  prepareLattice( sLattice, converter, bulkDynamics, sBoundaryCondition, sOffBoundaryCondition, stlReader, superGeometry );
+
+  // === 4th Step: Main Loop with Timer ===
+  clout << "starting simulation..." << endl;
+  Timer<T> timer( converter.getLatticeTime( maxPhysT ), superGeometry.getStatistics().getNvoxel() );
+  timer.start();
+
+  for ( int iT = 0; iT < converter.getLatticeTime( maxPhysT ); ++iT ) {
+
+    // === 5th Step: Definition of Initial and Boundary Conditions ===
+    setBoundaryValues( sLattice, converter, iT, superGeometry );
+
+    // === 6th Step: Collide and Stream Execution ===
+    sLattice.collideAndStream();
+
+    // === 7th Step: Computation and Output of the Results ===
+    getResults( sLattice, converter, iT, superGeometry, timer, stlReader );
+  }
+
+  timer.stop();
+  timer.printSummary();
+}
+
diff --git a/examples/laminar/cylinder3d/cylinder3d.fcstd b/examples/laminar/cylinder3d/cylinder3d.fcstd
new file mode 100644
index 0000000..8042574
--- /dev/null
+++ b/examples/laminar/cylinder3d/cylinder3d.fcstd
diff --git a/examples/laminar/cylinder3d/cylinder3d.stl b/examples/laminar/cylinder3d/cylinder3d.stl
new file mode 100644
index 0000000..b83fd6e
--- /dev/null
+++ b/examples/laminar/cylinder3d/cylinder3d.stl
diff --git a/examples/laminar/cylinder3d/definitions.mk b/examples/laminar/cylinder3d/definitions.mk
new file mode 100644
index 0000000..8cb98b0
--- /dev/null
+++ b/examples/laminar/cylinder3d/definitions.mk
@@ -0,0 +1,30 @@
+#  This file is part of the OpenLB library
+#
+#  Copyright (C) 2007 Mathias 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.
+
+
+###########################################################################
+###########################################################################
+## DEFINITIONS TO BE CHANGED
+
+ROOT            := ../../..
+SRC             := cylinder3d.cpp
+OUTPUT          := cylinder3d
diff --git a/examples/laminar/cylinder3d/module.mk b/examples/laminar/cylinder3d/module.mk
new file mode 100644
index 0000000..1190482
--- /dev/null
+++ b/examples/laminar/cylinder3d/module.mk
@@ -0,0 +1,29 @@
+#  This file is part of the OpenLB library
+#
+#  Copyright (C) 2017 Markus Mohrhard
+#  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.
+
+current_dir := $(dir $(word $(words $(MAKEFILE_LIST)),$(MAKEFILE_LIST)))
+
+include global.mk
+include rules.mk
+include $(addsuffix definitions.mk, $(current_dir))
+
+$(eval $(call sample,$(current_dir)$(OUTPUT),$(addprefix $(current_dir), $(SRC))))