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  4. +7
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      CREDITS.txt
  5. +344
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  6. +58
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  11. +2
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      diff-fino-lizard.dat
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.gitignore View File

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build
sparselizard
nbproject
src

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CITEME.txt View File

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If you like this library do not hesitate to cite the following reference:

"Sparselizard - the user friendly finite element c++ library", Alexandre Halbach, University of Liege, Belgium

available at "http://hdl.handle.net/2268/216780".

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COPYRIGHT View File

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Copyright (C) 2017 A. Halbach and C. Geuzaine, University of Liege
Copyright (C) 2018-2019 A. Halbach, IMEC

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CREDITS.txt View File

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Alexandre Halbach <alexandre.halbach at gmail.com>

Sincere thanks
to Maxime Spirlet for all his technical help,
to Christophe Geuzaine for his very broad knowledge of numerical methods,
to Rachid Haouari for his valuable user feedback and code input,
and to the PETSc team for PETSc and for the unlimited support they provide.

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LICENSE.txt View File

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Sparselizard is provided under the terms of the GNU General Public License
(GPL), Version 2 or later.

GNU GENERAL PUBLIC LICENSE
Version 2

Copyright (C) 1989, 1991 Free Software Foundation, Inc.
51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA
Everyone is permitted to copy and distribute verbatim copies
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Makefile View File

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##### THESE ARE THE REQUIRED LIBRARIES:

UNAME := $(shell uname)

ifeq ($(UNAME), Linux)
LIBS = -L ~/SLlibs/petsc/arch-linux2-c-opt/lib -l openblas -l petsc -l slepc
INCL = -I ~/SLlibs/petsc/include/petsc/mpiuni -I ~/SLlibs/petsc/arch-linux2-c-opt/externalpackages/git.openblas -I ~/SLlibs/petsc/include/ -I ~/SLlibs/petsc/arch-linux2-c-opt/include/
endif
ifeq ($(UNAME), Darwin)
LIBS = -L ~/SLlibs/petsc/arch-darwin-c-opt/lib -l openblas -l petsc -l slepc
INCL = -I ~/SLlibs/petsc/include/petsc/mpiuni -I ~/SLlibs/petsc/arch-darwin-c-opt/externalpackages/git.openblas -I ~/SLlibs/petsc/include/ -I ~/SLlibs/petsc/arch-darwin-c-opt/include/
endif


# $@ is the filename representing the target.
# $< is the filename of the first prerequisite.
# $^ the filenames of all the prerequisites.
# $(@D) is the file path of the target file.
# D can be added to all of the above.

CXX = g++ -fopenmp # openmp is used for parallel sorting on Linux
CXX_FLAGS= -std=c++11 -O0 -g -Wno-return-type # Do not warn when not returning anything (e.g. in virtual functions)

# List of all directories containing the headers:
INCLUDES = -I src -I src/field -I src/expression -I src/expression/operation -I src/shapefunction -I src/formulation -I src/shapefunction/hierarchical -I src/shapefunction/hierarchical/h1 -I src/shapefunction/hierarchical/hcurl -I src/shapefunction/hierarchical/meca -I src/gausspoint -I src/shapefunction/lagrange -I src/mesh -I src/io -I src/io/gmsh -I src/io/paraview -I src/io/nastran -I src/resolution -I src/geometry
# List of all .cpp source files:
CPPS= $(wildcard src/*.cpp) $(wildcard src/field/*.cpp) $(wildcard src/expression/*.cpp) $(wildcard src/expression/operation/*.cpp) $(wildcard src/shapefunction/*.cpp) $(wildcard src/formulation/*.cpp) $(wildcard src/shapefunction/hierarchical/*.cpp) $(wildcard src/shapefunction/hierarchical/h1/*.cpp) $(wildcard src/shapefunction/hierarchical/meca/*.cpp) $(wildcard src/shapefunction/hierarchical/hcurl/*.cpp) $(wildcard src/gausspoint/*.cpp) $(wildcard src/shapefunction/lagrange/*.cpp) $(wildcard src/mesh/*.cpp) $(wildcard src/io/*.cpp) $(wildcard src/io/gmsh/*.cpp) $(wildcard src/io/paraview/*.cpp) $(wildcard src/io/nastran/*.cpp) $(wildcard src/resolution/*.cpp) $(wildcard src/geometry/*.cpp)
# Final binary name:
BIN = sparselizard
# Put all generated stuff to this build directory:
BUILD_DIR = ./build


# Same list as CPP but with the .o object extension:
OBJECTS=$(CPPS:%.cpp=$(BUILD_DIR)/%.o)
# Gcc/Clang will create these .d files containing dependencies.
DEP = $(OBJECTS:%.o=%.d)

all: $(OBJECTS)
# The main is always recompiled (it could have been replaced):
$(CXX) $(CXX_FLAGS) $(LIBS) $(INCL) $(INCLUDES) -c main.cpp -o $(BUILD_DIR)/main.o
# Linking objects:
$(CXX) $(BUILD_DIR)/main.o $(OBJECTS) $(LIBS) -o $(BIN)
# Include all .d files
-include $(DEP)

$(BUILD_DIR)/%.o: %.cpp
# Create the folder of the current target in the build directory:
mkdir -p $(@D)
# Compile .cpp file. MMD creates the dependencies.
$(CXX) $(CXX_FLAGS) $(LIBS) $(INCL) $(INCLUDES) -MMD -c $< -o $@

clean :
# Removes all files created.
rm -rf $(BUILD_DIR)
rm -f $(BIN)

+ 6
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README.md View File

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The `src` directory should be a symlink to the base sparselizard distribution.
Note that the positive check for `universe::isaxisymmetric` in `src/io/paraview/pvinterface.cpp:175` has been commented out to get results in $x$-$y$.

The input mesh is the same as in Fino (axi-100.geo) but written in v2.2
The result axi-fino-100.dat is the horizontal displacement (in the x direction) along evaluated at x=0.95*0.05 along y \in [0,2].
Full 2D vtk is axi-fino-100.vtk

+ 17
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axi-100.geo View File

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// an structured rectangle which creates an axi-symmetric
// solid cylinder of radius 0.5 and length (height) 2
SetFactory("OpenCASCADE");
Rectangle(1) = {0, 0, 0, 0.5, 2};

// entities for BCs and volume
Physical Curve("bottom", 1) = {1};
Physical Curve("top", 2) = {3};
Physical Surface("bulk", 3) = {1};

// structured grid
Transfinite Line {1,3} = 1+0.5/0.01;
Transfinite Line {2,4} = 1+2/0.01;
Transfinite Surface "*";
Recombine Surface {1}; // quads instead of triangs
Mesh.ElementOrder = 2; // second-order quads
Mesh.SecondOrderIncomplete = 0; // force quads9 (if set to true, quad8 are created)

+ 201
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axi-fino-100.dat View File

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0.000000e+00 0.000000e+00
1.000000e-02 1.055176e-05
2.000000e-02 2.173914e-05
3.000000e-02 3.231060e-05
4.000000e-02 4.187692e-05
5.000000e-02 5.046932e-05
6.000000e-02 5.821022e-05
7.000000e-02 6.521901e-05
8.000000e-02 7.159544e-05
9.000000e-02 7.741982e-05
1.000000e-01 8.275715e-05
1.100000e-01 8.766089e-05
1.200000e-01 9.217560e-05
1.300000e-01 9.633892e-05
1.400000e-01 1.001829e-04
1.500000e-01 1.037355e-04
1.600000e-01 1.070210e-04
1.700000e-01 1.100609e-04
1.800000e-01 1.128748e-04
1.900000e-01 1.154798e-04
2.000000e-01 1.178915e-04
2.100000e-01 1.201243e-04
2.200000e-01 1.221910e-04
2.300000e-01 1.241032e-04
2.400000e-01 1.258722e-04
2.500000e-01 1.275078e-04
2.600000e-01 1.290193e-04
2.700000e-01 1.304149e-04
2.800000e-01 1.317031e-04
2.900000e-01 1.328909e-04
3.000000e-01 1.339854e-04
3.100000e-01 1.349930e-04
3.200000e-01 1.359194e-04
3.300000e-01 1.367703e-04
3.400000e-01 1.375508e-04
3.500000e-01 1.382659e-04
3.600000e-01 1.389201e-04
3.700000e-01 1.395175e-04
3.800000e-01 1.400623e-04
3.900000e-01 1.405580e-04
4.000000e-01 1.410083e-04
4.100000e-01 1.414164e-04
4.200000e-01 1.417853e-04
4.300000e-01 1.421178e-04
4.400000e-01 1.424169e-04
4.500000e-01 1.426847e-04
4.600000e-01 1.429238e-04
4.700000e-01 1.431362e-04
4.800000e-01 1.433242e-04
4.900000e-01 1.434896e-04
5.000000e-01 1.436342e-04
5.100000e-01 1.437596e-04
5.200000e-01 1.438674e-04
5.300000e-01 1.439591e-04
5.400000e-01 1.440362e-04
5.500000e-01 1.440998e-04
5.600000e-01 1.441510e-04
5.700000e-01 1.441911e-04
5.800000e-01 1.442210e-04
5.900000e-01 1.442417e-04
6.000000e-01 1.442541e-04
6.100000e-01 1.442590e-04
6.200000e-01 1.442571e-04
6.300000e-01 1.442493e-04
6.400000e-01 1.442362e-04
6.500000e-01 1.442183e-04
6.600000e-01 1.441961e-04
6.700000e-01 1.441704e-04
6.800000e-01 1.441414e-04
6.900000e-01 1.441097e-04
7.000000e-01 1.440755e-04
7.100000e-01 1.440392e-04
7.200000e-01 1.440013e-04
7.300000e-01 1.439620e-04
7.400000e-01 1.439217e-04
7.500000e-01 1.438805e-04
7.600000e-01 1.438387e-04
7.700000e-01 1.437965e-04
7.800000e-01 1.437542e-04
7.900000e-01 1.437119e-04
8.000000e-01 1.436697e-04
8.100000e-01 1.436277e-04
8.200000e-01 1.435860e-04
8.300000e-01 1.435448e-04
8.400000e-01 1.435043e-04
8.500000e-01 1.434644e-04
8.600000e-01 1.434252e-04
8.700000e-01 1.433870e-04
8.800000e-01 1.433494e-04
8.900000e-01 1.433127e-04
9.000000e-01 1.432770e-04
9.100000e-01 1.432422e-04
9.200000e-01 1.432084e-04
9.300000e-01 1.431756e-04
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1.980000e+00 1.424949e-04
1.990000e+00 1.424949e-04
2.000000e+00 1.424948e-04

+ 101013
- 0
axi-fino-100.vtk
File diff suppressed because it is too large
View File


+ 2
- 0
axi-lizard.geo View File

@@ -0,0 +1,2 @@
Merge "axi-100.geo";
Mesh.MshFileVersion = 2.2;

+ 50616
- 0
axi-lizard.msh
File diff suppressed because it is too large
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+ 100
- 0
diff-fino-lizard.dat View File

@@ -0,0 +1,100 @@
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3.980000e-02 4.168559e-05 4.005148e-05 -1.634118e-06 -4.080044e-02
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1.841600e+00 1.424958e-04 1.409960e-04 -1.499779e-06 -1.063703e-02
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1.881200e+00 1.424954e-04 1.409956e-04 -1.499749e-06 -1.063685e-02
1.901000e+00 1.424949e-04 1.409954e-04 -1.499524e-06 -1.063527e-02
1.920800e+00 1.424948e-04 1.409951e-04 -1.499752e-06 -1.063691e-02
1.940600e+00 1.424948e-04 1.409947e-04 -1.500107e-06 -1.063946e-02
1.960400e+00 1.424949e-04 1.409943e-04 -1.500620e-06 -1.064313e-02
1.980200e+00 1.424949e-04 1.409938e-04 -1.501072e-06 -1.064637e-02

+ 10
- 0
diff.was View File

@@ -0,0 +1,10 @@
FUNCTION u_fino(y) FILE_PATH axi-fino-100.dat

MESH FILE_PATH u.vtk DIMENSIONS 2 READ_SCALAR u1 AS u_lizard_vtk
# extract the profile at 95% of the radius
u_lizard(y) := u_lizard_vtk(0.95*0.5, y)

# write the two profiles and their differences
PRINT_FUNCTION FORMAT %e FILE_PATH diff-fino-lizard.dat \
u_fino u_lizard u_lizard(y)-u_fino(y) (u_lizard(y)-u_fino(y))/u_lizard(y) \
MIN 2e-2 MAX 2 NSTEPS 100

+ 40
- 0
main.cpp View File

@@ -0,0 +1,40 @@
#include "sparselizardbase.h"

using namespace mathop;

void sparselizard(void)
{
formulation elasticity;
int bottom = 1, top = 2, bulk = 3;
double lambda, mu;
setaxisymmetry();
mesh mymesh("axi-lizard.msh");

field u("h1xyz");
u.setorder(bulk, 2);
u.setconstraint(bottom);
parameter E, nu;
E|bulk = 100e3; nu|bulk = 0.3;
elasticity += integral(bulk, predefinedelasticity(dof(u), tf(u), E, nu));
elasticity += integral(top, array1x3(0,-100,0)*tf(u));

elasticity.generate();
solve(elasticity);

u.write(bulk, "u.vtk");
}

int main(void)
{
SlepcInitialize(0,{},0,0);

sparselizard();

SlepcFinalize();

return 0;
}


+ 15
- 0
run_sparselizard.sh View File

@@ -0,0 +1,15 @@
#!/bin/bash

# THIS SCRIPT RUNS THE SPARSELIZARD EXECUTABLE


if [ "$(uname)" == "Linux" ]; then
LD_LIBRARY_PATH="$HOME/SLlibs/petsc/arch-linux2-c-opt/lib":$LD_LIBRARY_PATH
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH
elif [ "$(uname)" == "Darwin" ]; then
DYLD_LIBRARY_PATH="$HOME/SLlibs/petsc/arch-darwin-c-opt/lib":$DYLD_LIBRARY_PATH
export DYLD_LIBRARY_PATH=$DYLD_LIBRARY_PATH
fi


./sparselizard;

+ 70015
- 0
u.vtk
File diff suppressed because it is too large
View File


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