Failed in making Velocity aware mesh using PUMGEN

[jwjeremy]

Describe the bug I applied the<!-- VelocityAwareMeshing--> in the pumgen xml but failed to generate mesh following the velocity structure (both 1D material and 3D material case.

Expected behavior Expect to see refinement on the meshing following the material file.

To Reproduce Steps to reproduce the behavior: Pumgen: /import/freenas-m-05-seissol/public2022/packages/PUMGen_sim10/build/pumgen Simmodeler: SimModeler 8.0 Machine: Exception

Module loaded: Currently Loaded Modulefiles:

1) mpi/2021.11                                           
 2) mpi.intel/2024                                        
 3) libpciaccess/0.17-gcc-12.2.0-foegz6x                  
 4) libiconv/1.17-gcc-12.2.0-pztn24l                      
 5) xz/5.4.1-gcc-12.2.0-beahnap                           
 6) zlib/1.2.13-gcc-12.2.0-qvwbld7                        
 7) libxml2/2.10.3-gcc-12.2.0-6g4ulfn                     
 8) ncurses/6.4-gcc-12.2.0-bt2tv43                        
 9) hwloc/2.9.1-gcc-12.2.0-wjb3zv3                        
10) numactl/2.0.14-gcc-12.2.0-62dxa76                     
11) bzip2/1.0.8-gcc-12.2.0-yn6mmdj                        
12) pigz/2.7-gcc-12.2.0-5w24zpq                           
13) zstd/1.5.5-gcc-12.2.0-d3iesv2                         
14) tar/1.34-gcc-12.2.0-344crw2                           
15) gettext/0.21.1-gcc-12.2.0-htnecfu                     
16) openssl/3.1.1-gcc-12.2.0-xydqrfk                      
17) krb5/1.20.1-gcc-12.2.0-ywylqdh                        
18) libedit/3.1-20210216-gcc-12.2.0-uybrqun               
19) libxcrypt/4.4.35-gcc-12.2.0-bnemwrw                   
20) openssh/9.3p1-gcc-12.2.0-nvgsowj                      
21) libevent/2.1.12-gcc-12.2.0-zgp5wia                    
22) pmix/4.2.3-gcc-12.2.0-ksjdukm                         
23) openmpi/4.1.5-gcc-12.2.0-ab5rikq                      
24) pkgconf/1.9.5-gcc-12.2.0-pdjoat6                      
25) hdf5/1.12.2-gcc-12.2.0-xwxzdqa                        
26) netcdf-c/4.7.4-gcc-12.2.0-5wzc2ic                     
27) asagi/1.0.1-gcc-12.2.0-xvz2l4l                        
28) gcc-runtime/12.2.0-gcc-12.2.0-v4wn2t2                 
29) impalajit/main-gcc-12.2.0-judjtis                     
30) nghttp2/1.52.0-gcc-12.2.0-x5wdgxs                     
31) curl/8.1.2-gcc-12.2.0-2s4wrx6                         
32) readline/8.2-gcc-12.2.0-ofdoevl                       
33) unzip/6.0-gcc-12.2.0-7wxq5cw                          
34) lua/5.3.2-gcc-12.2.0-zucnb2e                          
35) python/3.9.2-gcc-12.2.0-ikw34ao                       
36) yaml-cpp/0.6.2-gcc-12.2.0-adem7ot                     
37) easi/1.3.0-gcc-12.2.0-3egmupu                         
38) simmetrix-simmodsuite/17.0-220511-gcc-12.2.0-uzc6sef  
39) metis/5.1.0-gcc-12.2.0-kcvzwx3                        
40) parmetis/4.0.3-gcc-12.2.0-minbyzl                                 
41) zoltan/3.83-gcc-12.2.0-sl2xogx                        
42) pumi/2.2.7-gcc-12.2.0-jvajctp                         
43) pumgen/develop-gcc-12.2.0-dk4hwzp                     
44) intel-lm/1.0                                          
45) tbb                                                   
46) compiler-rt                                           
47) compiler                                              
48) intel/2022   

4. Provide parameter/material files. All the files required to reproduce the error is in the directory with the main script and subdirectory PUMGEN_mesh.sh /import/freenas-m-05-seissol/jwcwong/Tohoku/MESH /import/freenas-m-05-seissol/jwcwong/Tohoku/MESH/Tohoku_v7_JIVSM_2404_vel_aware_0.5hz_1D

Screenshots/Console output Mesh output (no refinement in the mesh)

Additional context I have to load intel compiler and intel-lm math module to run pumgen. Would that be the case leading to the error? Error encounter without module load intel intel-lm pumgen: error while loading shared libraries: libimf.so:

[davschneller]

Hi, do you have some terminal output available when creating the mesh with the velocity-aware option?

[jwjeremy]

Yes, i uploaded the output into /import/freenas-m-05-seissol/jwcwong/Tohoku/MESH/PUMGEN_JIVSM_v7_15d_1500_1D_0.5Hz.log_0423

Thanks!

[sebwolf-de]

On what machine is that?

[davschneller]

By the name, it's this one here: https://www.geophysik.uni-muenchen.de/en/research/geocomputing/facilities/exception

I had a look at the log; and it seems like the PUMgen version may be actually older than the velocity-aware meshing support (the respective log entries weren't there; but they were when running with a newer version of PUMgen on the same mesh).

[sebwolf-de]

So: please recompile the latest version of PUMGen and report, if the problem still persists.

Note, that I don't have access to this machine.

[jwjeremy]

The velocity-aware mesh attribute works with the latest pumgen! Thanks so much for the help!