CFDEM installation on Ubuntu 20.04

Hello!

I am wondering whether or not I have installed CFDEM coupling properly. The screenshot of compilation process is attached
I tried to run few CFDEM tutorials, they simulate until some point and that are not able to generate some png files. Forums say that this might be related to the compilation of OpenFOAM

I am using Ubuntu 20.04 and also attaching the OpenFOAM compilation error text. It throws an error and I am not able to run any OpenFOAM tutorials. I've been thinking to go back to 18.04 and try it there.

Best regards,
Azamat

Edit: I have looked at the log files. At the log_compileCFDEMcoupling_cfdemParticle file there is a 'is up to date' in the end so I am attaching the cfdemSolverIB and cfdemSolverPiso compilation log files (I've tried to use OF-4.x but errors are same)

Attachment	Size
cfdem_installation.png	124.17 KB
error.txt	17.9 KB
log_compilecfdemcoupling_cfdemsolverib.txt	5.42 KB
log_compilecfdemcoupling_cfdemsolverpiso.txt	5.08 KB

Forums:

CFDEM®coupling - User Forum

AzamatSalamat | Sun, 05/17/2020 - 08:44

Ubuntu 18.04 seems fine

This error was avoided when compiling on Ubuntu 18.04 so I guess this might help.

However, when I run one of the tutorials I receive the following error:
Error opening file /home/azamat/CFDEM/azamat-PUBLIC-5.x/run/twoSpheresGlowinskiMPI/CFD/octave/pos_y_two_part_rec_glow.eps: No such file or directory
Error opening file /home/azamat/CFDEM/azamat-PUBLIC-5.x/run/twoSpheresGlowinskiMPI/CFD/octave/vel_y_two_part_rec_glow.eps: No such file or directory

In another tutorial: No images found in “file:///home/azamat/CFDEM/azamat-PUBLIC-5.x/run/ErgunTestMPI/CFD/octave/cfdemSolverPiso_ErgunTestMPI.png”.

Does this mean that the CFDEM-coupling was still compiled incorrectly?

AzamatSalamat | Sun, 05/17/2020 - 13:52

Slightly off-topic question

Is CFDEM-Coupling even supporting OF-5.x?

In the official documentation, it is asked to run foamSystemCheck (which is not critical, but anyway)
However, this application is not in the OF-5.x distribution, but is available in the 4.x release

Kuralay | Fri, 02/10/2023 - 09:48

Hi, Azamat!

Even though you wrote this back in 2020, I still think you will answer.

I am currently trying to install CFDEM coupling. I did everything according to the instructions. If I write a cfdemSysTest I get this

*********************************************
* C F D E M (R) c o u p l i n g *
* *
* by DCS Computing GmbH *
* www.dcs-computing.com *
*********************************************

*********************************
CFDEM(R)coupling system settings:
*********************************
CFDEM_VERSION=PUBLIC
couple to OF_VERSION=5.x
compile option=Opt

check if paths are set correctly
valid:yes critical:yes - $CFDEM_PROJECT_DIR = /home/kuralay/CFDEM/CFDEMcoupling-PUBLIC-5.x
valid:yes critical:no - $CFDEM_PROJECT_USER_DIR = /home/kuralay/CFDEM/kuralay-PUBLIC-5.x
valid:yes critical:yes - $CFDEM_SRC_DIR = /home/kuralay/CFDEM/CFDEMcoupling-PUBLIC-5.x/src
valid:yes critical:yes - $CFDEM_SOLVER_DIR = /home/kuralay/CFDEM/CFDEMcoupling-PUBLIC-5.x/applications/solvers
valid:yes critical:yes - $CFDEM_TUT_DIR = /home/kuralay/CFDEM/CFDEMcoupling-PUBLIC-5.x/tutorials
valid:yes critical:yes - $CFDEM_LIGGGHTS_SRC_DIR = /home/kuralay/LIGGGHTS/LIGGGHTS-PUBLIC/src
valid:yes critical:yes - $CFDEM_LIGGGHTS_LIB_PATH = /home/kuralay/LIGGGHTS/LIGGGHTS-PUBLIC/src
valid:yes critical:yes - $CFDEM_LPP_DIR = /home/kuralay/LIGGGHTS/lpp/src
valid:yes critical:yes - $CFDEM_ADD_LIBS_DIR = /home/kuralay/CFDEM/CFDEMcoupling-PUBLIC-5.x/src/lagrangian/cfdemParticle/etc/addLibs_universal
valid:yes critical:yes - $CFDEM_LIB_DIR = /home/kuralay/CFDEM/CFDEMcoupling-PUBLIC-5.x/platforms/linux64GccDPInt32Opt/lib
valid:yes critical:yes - $CFDEM_APP_DIR = /home/kuralay/CFDEM/CFDEMcoupling-PUBLIC-5.x/platforms/linux64GccDPInt32Opt/bin
valid:yes critical:no - $CFDEM_USER_LIB_DIR = /home/kuralay/CFDEM/kuralay-PUBLIC-5.x/platforms/linux64GccDPInt32Opt/lib
valid:yes critical:no - $CFDEM_USER_APP_DIR = /home/kuralay/CFDEM/kuralay-PUBLIC-5.x/platforms/linux64GccDPInt32Opt/bin
valid:yes critical:no - $CFDEM_TEST_HARNESS_PATH = /home/kuralay/CFDEM/kuralay-PUBLIC-5.x/log/logFilesCFDEM-PUBLIC-5.x
valid:NO critical:no - $C3PO_SRC_DIR = does not exist

library names
$CFDEM_LIGGGHTS_LIB_NAME = lmp_auto
$CFDEM_LIB_NAME = lagrangianCFDEM-PUBLIC-5.x
$LD_LIBRARY_PATH = /home/kuralay/LIGGGHTS/LIGGGHTS-PUBLIC/lib/vtk/install/lib/
$WM_NCOMPPROCS = 12
$WM_LABEL_SIZE = 32

Additional lib settings
CFDEM_ADD_LIBS_DIR/CFDEM_ADD_LIBS_NAME = /home/kuralay/CFDEM/CFDEMcoupling-PUBLIC-5.x/src/lagrangian/cfdemParticle/etc/addLibs_universal/additionalLibs_5.x
CFDEM_ADD_LIB_PATHS =
CFDEM_ADD_LIBS =

LIGGGHTS library link (created during compilation of CFDEM)
lrwxrwxrwx 1 kuralay kuralay 57 Feb 8 15:41 /home/kuralay/CFDEM/CFDEMcoupling-PUBLIC-5.x/platforms/linux64GccDPInt32Opt/lib/liblmp_auto.so -> /home/kuralay/LIGGGHTS/LIGGGHTS-PUBLIC/src/liblmp_auto.so
*******************
g++:
/usr/bin/g++
g++ (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0
Copyright (C) 2019 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

gcc:
/usr/bin/gcc
gcc (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0
Copyright (C) 2019 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

mpic++:
/usr/bin/mpic++
g++ (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0
Copyright (C) 2019 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

mpirun:
/usr/bin/mpirun
mpirun (Open MPI) 4.0.3

Report bugs to http://www.open-mpi.org/community/help/
**********************
additional packages...

To compile the CFDEM® project , I opened the terminal and launched . And I got this message
copying patch files for LIGGGHTS if available
cp: cannot stat '/home/kuralay/CFDEM/CFDEMcoupling-PUBLIC-5.x/src/LIGGGHTSpatch/*': No such file or directory

===========================================
deactivating all possible packages of LIGGGHTS now...
Please provide the packages to be compiled in the //home/kuralay/CFDEM/CFDEMcoupling-PUBLIC-5.x/src/lagrangian/cfdemParticle/etc/package-undo-liggghts-list.txt file.
Packages must be in: /home/kuralay/LIGGGHTS/LIGGGHTS-PUBLIC/src/../lib.
will change path...
/home/kuralay/LIGGGHTS/LIGGGHTS-PUBLIC/src
rm: cannot remove 'log_compilePOEMSlib': No such file or directory
Uninstalling package POEMS
will change path...
/home/kuralay/LIGGGHTS/LIGGGHTS-PUBLIC/src
rm: cannot remove 'log_compileDIPOLElib': No such file or directory
Package DIPOLE does not exist
will change path...
/home/kuralay/LIGGGHTS/LIGGGHTS-PUBLIC/src
rm: cannot remove 'log_compileASPHERElib': No such file or directory
Package ASPHERE does not exist
will change path...
/home/kuralay/LIGGGHTS/LIGGGHTS-PUBLIC/src
rm: cannot remove 'log_compilePASCALlib': No such file or directory
Uninstalling package PASCAL

===========================================
activating packages of LIGGGHTS now...
Please provide the packages to be compiled in the //home/kuralay/CFDEM/CFDEMcoupling-PUBLIC-5.x/src/lagrangian/cfdemParticle/etc/package-liggghts-list.txt file.
Packages must be in: /home/kuralay/LIGGGHTS/LIGGGHTS-PUBLIC/src/../lib.

// log_compileLIGGGHTS-2023-02-10-11:31 //

/home/kuralay/LIGGGHTS/LIGGGHTS-PUBLIC/src

rm -rf Obj_auto MAKE/Makefile.auto.options lmp_auto liblmp_auto.a liblmp_auto.so
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make: *** [Makefile:130: clean-auto] Error 1
rm: cannot remove '/home/kuralay/LIGGGHTS/LIGGGHTS-PUBLIC/src/liblmp_auto.a': No such file or directory
cleaning LIGGGHTS
compiling LIGGGHTS with -j 12
Creating list of contact models completed.
cp: cannot create regular file 'Obj_auto/Makefile': Permission denied
make: *** [Makefile:110: auto] Error 1
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cp: cannot create regular file 'Obj_auto/contact_model_base.h': Permission denied
cp: cannot create regular file 'Obj_auto/dump_mesh_vtk.h': Permission denied
cp: cannot create regular file 'Obj_auto/region_neighbor_list.h': Permission denied
cp: cannot create regular file 'Obj_auto/contact_models.h': Permission denied
cp: cannot create regular file 'Obj_auto/atom_vec_atomic.h': Permission denied
cp: cannot create regular file 'Obj_auto/tri_mesh_I_superquadric.h': Permission denied
cp: cannot create regular file 'Obj_auto/memory.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_cfd_coupling_force.h': Permission denied
cp: cannot create regular file 'Obj_auto/random.h': Permission denied
cp: cannot create regular file 'Obj_auto/neigh_full.h': Permission denied
cp: cannot create regular file 'Obj_auto/run_time.h': Permission denied
cp: cannot create regular file 'Obj_auto/primitive_wall.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_nve_sph.h': Permission denied
cp: cannot create regular file 'Obj_auto/atom_vec.h': Permission denied
cp: cannot create regular file 'Obj_auto/histogram.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_cfd_coupling_convection.h': Permission denied
cp: cannot create regular file 'Obj_auto/surface_model_default.h': Permission denied
cp: cannot create regular file 'Obj_auto/mesh_module_liquidtransfer.h': Permission denied
cp: cannot create regular file 'Obj_auto/neigh_dummy.h': Permission denied
cp: cannot create regular file 'Obj_auto/dump_local_gran_vtk.h': Permission denied
cp: cannot create regular file 'Obj_auto/sort_buffer.h': Permission denied
cp: cannot create regular file 'Obj_auto/dump_euler_vtk.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_nve_superquadric.h': Permission denied
cp: cannot create regular file 'Obj_auto/surface_mesh_feature_remove_I.h': Permission denied
cp: cannot create regular file 'Obj_auto/abstract_mesh.h': Permission denied
cp: cannot create regular file 'Obj_auto/sph_kernel_cubicspline2D.h': Permission denied
cp: cannot create regular file 'Obj_auto/dump_particle.h': Permission denied
cp: cannot create regular file 'Obj_auto/style_dihedral.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_contact_atom_counter.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_sph_density_continuity.h': Permission denied
cp: cannot create regular file 'Obj_auto/tri_line.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_rigid.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_wall.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_template_sphere.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_sph_velgrad.h': Permission denied
cp: cannot create regular file 'Obj_auto/info.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_nve_sphere.h': Permission denied
cp: cannot create regular file 'Obj_auto/style_atom.h': Permission denied
cp: cannot create regular file 'Obj_auto/pointers.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_template_superquadric.h': Permission denied
cp: cannot create regular file 'Obj_auto/tri_mesh_I.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_respa.h': Permission denied
cp: cannot create regular file 'Obj_auto/region_cone.h': Permission denied
cp: cannot create regular file 'Obj_auto/neigh_respa.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_insert_stream_predefined.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_contact_property_atom.h': Permission denied
cp: cannot create regular file 'Obj_auto/neigh_derive.h': Permission denied
cp: cannot create regular file 'Obj_auto/update.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_wall_gran.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_move.h': Permission denied
cp: cannot create regular file 'Obj_auto/irregular.h': Permission denied
cp: cannot create regular file 'Obj_auto/error_special.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_nve_noforce.h': Permission denied
cp: cannot create regular file 'Obj_auto/dihedral.h': Permission denied
cp: cannot create regular file 'Obj_auto/compute_pair_gran_local.h': Permission denied
cp: cannot create regular file 'Obj_auto/compute_ke_atom.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_check_timestep_sph.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_setforce.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_nve_line.h': Permission denied
cp: cannot create regular file 'Obj_auto/tangential_model_history.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_move_mesh.h': Permission denied
cp: cannot create regular file 'Obj_auto/replicate.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_region_variable.h': Permission denied
cp: cannot create regular file 'Obj_auto/mesh_mover_rotation.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_minimize.h': Permission denied
cp: cannot create regular file 'Obj_auto/rolling_model_epsd2.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_read_restart.h': Permission denied
cp: cannot create regular file 'Obj_auto/compute_com.h': Permission denied
cp: cannot create regular file 'Obj_auto/timer.h': Permission denied
cp: cannot create regular file 'Obj_auto/sph_kernel_spiky.h': Permission denied
cp: cannot create regular file 'Obj_auto/tri_mesh_planar_I.h': Permission denied
cp: cannot create regular file 'Obj_auto/reader.h': Permission denied
cp: cannot create regular file 'Obj_auto/general_container_I.h': Permission denied
cp: cannot create regular file 'Obj_auto/granular_pair_style.h': Permission denied
cp: cannot create regular file 'Obj_auto/compute_erotate_asphere.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_store.h': Permission denied
cp: cannot create regular file 'Obj_auto/atom_vec_sph.h': Permission denied
cp: cannot create regular file 'Obj_auto/normal_model_hooke_hysteresis.h': Permission denied
cp: cannot create regular file 'Obj_auto/write_data.h': Permission denied
cp: cannot create regular file 'Obj_auto/compute_group_group.h': Permission denied
cp: cannot create regular file 'Obj_auto/style_lb.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_sph_density_summation.h': Permission denied
cp: cannot create regular file 'Obj_auto/neigh_multi_level_grid.h': Permission denied
cp: cannot create regular file 'Obj_auto/reader_native.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_wall_gran_base.h': Permission denied
cp: cannot create regular file 'Obj_auto/compute_centro_atom.h': Permission denied
cp: cannot create regular file 'Obj_auto/compute_ke_multisphere.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_box_relax.h': Permission denied
cp: cannot create regular file 'Obj_auto/compute_reduce_region.h': Permission denied
cp: cannot create regular file 'Obj_auto/compute_com_molecule.h': Permission denied
cp: cannot create regular file 'Obj_auto/region_neighbor_list_base.h': Permission denied
cp: cannot create regular file 'Obj_auto/library.h': Permission denied
cp: cannot create regular file 'Obj_auto/style_pair.h': Permission denied
cp: cannot create regular file 'Obj_auto/multi_node_mesh_parallel_buffer_I.h': Permission denied
cp: cannot create regular file 'Obj_auto/cfd_regionmodel_none.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_scalar_transport_equation.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_particledistribution_discrete.h': Permission denied
cp: cannot create regular file 'Obj_auto/region_mesh_tet_I.h': Permission denied
cp: cannot create regular file 'Obj_auto/os_specific.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_ave_atom.h': Permission denied
cp: cannot create regular file 'Obj_auto/change_box.h': Permission denied
cp: cannot create regular file 'Obj_auto/pair_hybrid.h': Permission denied
cp: cannot create regular file 'Obj_auto/math_special.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_wall_region.h': Permission denied
cp: cannot create regular file 'Obj_auto/multi_node_mesh.h': Permission denied
cp: cannot create regular file 'Obj_auto/compute_property_atom.h': Permission denied
cp: cannot create regular file 'Obj_auto/atom_vec_line.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_sph_density_drift_corr.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_contact_property_atom_wall.h': Permission denied
cp: cannot create regular file 'Obj_auto/style_fix.h': Permission denied
cp: cannot create regular file 'Obj_auto/primitive_wall_definitions.h': Permission denied
cp: cannot create regular file 'Obj_auto/vector_liggghts.h': Permission denied
cp: cannot create regular file 'Obj_auto/granular_styles.h': Permission denied
cp: cannot create regular file 'Obj_auto/compute_pe_atom.h': Permission denied
cp: cannot create regular file 'Obj_auto/string_liggghts.h': Permission denied
cp: cannot create regular file 'Obj_auto/mesh_mover.h': Permission denied
cp: cannot create regular file 'Obj_auto/rolling_model_epsd.h': Permission denied
cp: cannot create regular file 'Obj_auto/contact_model_constants.h': Permission denied
cp: cannot create regular file 'Obj_auto/compute_msd_molecule.h': Permission denied
cp: cannot create regular file 'Obj_auto/read_restart.h': Permission denied
cp: cannot create regular file 'Obj_auto/style_reader.h': Permission denied
cp: cannot create regular file 'Obj_auto/pair_gran_proxy.h': Permission denied
cp: cannot create regular file 'Obj_auto/fix_sph_density_corr.h': Permission denied
cp: cannot create regular file 'Obj_auto/atom_vec_sph_var.h': Permission denied
make: *** [Makefile.shlib:64: auto] Error 1

Can you help me, please?

Kuralay | Fri, 02/10/2023 - 09:51

I

I think the problem is in vtk . But I don't know how to fix the error

CFDEM installation on Ubuntu 20.04

Forums:

Ubuntu 18.04 seems fine

Slightly off-topic question

Hi, Azamat!

I

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