Replies: 6 comments 5 replies
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The "bug" occurs because the optimization terminates while there are still empty cells. One possible solution is to start the optimization with zero weight using the command I would simply mesh the tesr with square elements: 
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I have tried using the command you have provided but its still reating mesh in Neper. I triedusing different element types and I know for 2D, I tried using quad and tri still it does not work. |
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Use the latest version, |
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Hello Romain,
Thank you so much for your prompt reply. Do you think that it is possible
to mesh such elongated grains, including a complex microstructure? Can you
provide me the full command line for making from tesr to tess and then mesh
in Neper using the one that you recommended using "optimization with zero
weight"?
Your expertise and suggestions are valuable to me, so I will be waiting for
your reply.
Regards,
Noshin Tasnim Tuli
…On Wed, Oct 22, 2025 at 3:31 AM Romain Quey ***@***.***> wrote:
The "bug" occurs because the optimization terminates while there are still
empty cells. One possible solution is to start the optimization with zero
weight using the command -morphooptini "coo:centroid,weight:0". However,
for a microstructure with elongated, non-convex grains, I'm afraid you will
never get a good result.
I would simply mesh the tesr with square elements:
neper -M file.tesr -elt hex -rcl 0.5
d.png (view on web)
<https://github.com/user-attachments/assets/0399a7be-319a-42c6-8eaa-1b00a00274e0>
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The result is not good, to say the least. |
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Thank you for your kind reply. Can you also clarify for me how I should use
this command that you also specified earlier, which is "to mesh the tesr
with square elements: neper -M file.tesr -elt hex -rcl 0.5" and the mesh
file you created and which command you have used?
#1027 (comment)
Regards,
Noshin Tasnim Tuli
…On Thu, Oct 23, 2025 at 3:15 AM Romain Quey ***@***.***> wrote:
Use the latest version, 4.10.2-22.
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See my reply here: #1027 (reply in thread). With the latest version, use |
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Hello,
I tried to update with the latest version but I am still getting this error
message from Neper ***@***.***:/mnt/c/Ubantu_app_software/practise14$
neper -M Tesr_file.tesr -elt tri -rcl 0.5
======================== N e p e r =======================
Info : A software package for polycrystal generation and meshing.
Info : Version 4.10.1
Info : Built with: gsl|muparser|opengjk|openmp|nlopt|libscotch (full)
Info : Running on 8 threads.
Info : <https://neper.info>
Info : Copyright (C) 2003-2024, and GNU GPL'd, by Romain Quey.
Info : No initialization file found (`/home/noshin/.neperrc').
Info : ---------------------------------------------------------------
Info : MODULE -M loaded with arguments:
Info : [ini file] (none)
Info : [com line] Tesr_file.tesr -elt tri -rcl 0.5
Info : ---------------------------------------------------------------
Info : Reading input data...
Info : - Reading arguments...
Warning: > Using a development Gmsh version (4.14.0-git)...
Info : Loading input data...
Info : - Loading raster tessellation...
Info : [i] Parsing file `Tesr_file.tesr'...
Info : [i] Parsed file `Tesr_file.tesr'.
Info : - Reconstructing topology...
Info : > Reconstructing 1D mesh... 100%
Info : > Reconstructing 0D mesh... 100%
Error : You have discovered a bug in Neper! Please file an issue at
https://github.com/rquey/neper/issues. Thank you.
Aborted (core dumped)"
…On Thu, Oct 23, 2025 at 3:39 AM Romain Quey ***@***.***> wrote:
See my reply here: #1027 (reply in thread)
<#1027 (reply in thread)>.
With the latest version <https://neper.info/downloads.html#latest-version>,
use neper -M file.tesr -elt hex -rcl 0.5.
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You are not using the latest version. Try again until you see |
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Hello Romain,
I hope you are doing well. As per your suggestions, I tried to install the
latest version of Neper, which is 4.10.2-22, but I am facing difficulties
because an error occurs repeatedly during the installation process. The
error is
***@***.***:/mnt/c/Ubantu_app_software$ cd neper-latest
***@***.***:/mnt/c/Ubantu_app_software/neper-latest$ cd neper-main
***@***.***:/mnt/c/Ubantu_app_software/neper-latest/neper-main$ cd
src
***@***.***:/mnt/c/Ubantu_app_software/neper-latest/neper-main/src$
mkdir build
***@***.***:/mnt/c/Ubantu_app_software/neper-latest/neper-main/src$
cd build
***@***.***:/mnt/c/Ubantu_app_software/neper-latest/neper-main/src/build$
cmake ..
-- The C compiler identification is GNU 13.3.0
-- The CXX compiler identification is GNU 13.3.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Found OpenMP_C: -fopenmp (found version "4.5")
-- Found OpenMP_CXX: -fopenmp (found version "4.5")
-- Found OpenMP: TRUE (found version "4.5")
-- Found Scotch: /usr/lib/x86_64-linux-gnu/libscotch.so
-- Found NLopt: /usr/lib/x86_64-linux-gnu/libnlopt.so
-- Neper is set to be installed in: /usr/local/bin and /usr/share
-- Configuring done (20.5s)
CMake Error at neper_t/CMakeLists.txt:31 (add_library):
Cannot find source file:
./net_tess/net_tess_opt/net_tess_opt_comp/net_tess_opt_comp_objective/net_tess_opt_comp_objective_fval/net_tess_opt_comp_objective_fval_gen/net_tess_opt_comp_objective_fval_gen_stat/net_tess_opt_comp_objective_fval_gen_stat1.c
Tried extensions .c .C .c++ .cc .cpp .cxx .cu .mpp .m .M .mm .ixx .cppm
.ccm .cxxm .c++m .h .hh .h++ .hm .hpp .hxx .in .txx .f .F .for .f77 .f90
.f95 .f03 .hip .ispc
CMake Error at neper_t/CMakeLists.txt:31 (add_library):
No SOURCES given to target: neper_t
The CMake Generate step failed. Build files cannot be regenerated
correctly."
I am actually clueless about how I can figure it out, and I have installed
the source zip code given below, which is taken from your website
suggestions. After extracting the file and following the command from
this installation file, I got the error message. What should I do right
now? Do I have to uninstall the Neper of the previous version, v4.10.1, or
can you provide me the latest version if possible? It would be really
helpful if you could look into this matter and provide me with a solution
for updating to the latest version.
Regards,
Noshin Tasnim Tuli
neper-main.zip
<https://drive.google.com/file/d/1Ec07BbnJO8skNwjuyW3hZmM1NNF_hprz/view?usp=drive_web>
…On Thu, Oct 23, 2025 at 3:56 AM Romain Quey ***@***.***> wrote:
You are not using the latest version. Try again until you see Info :
Version 4.10.2-22 in the header:
$ ./neper
======================== N e p e r =======================
Info : A software package for polycrystal generation and meshing.
Info : Version 4.10.2-22
Info : Built with: gsl|muparser|opengjk|openmp|nlopt|libscotch (full)
...
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Hello Romain,
I hope you are doing well. I have attempted to extract the files from the
folder multiple times on my own, but I still receive an error message.
While extracting the files, I received an error message, which I believe
may be preventing me from updating to the latest version of Neper on my
computer. The picture is attached below. I would appreciate it if you could
look into this matter, as it would be very helpful for me since I have been
stuck on the project for the last month. Therefore, I would be glad if you
replied to this email. Moreover, it would be grateful for me if you can
share the extracted files of the latest version since I am failing to do
the extraction for the error message.
Regards,
Noshin Tasnim Tuli
On Fri, Oct 24, 2025 at 3:09 AM Noshin Tasnim Tuli ***@***.***>
wrote:
… Hello Romain,
I hope you are doing well. As per your suggestions, I tried to install the
latest version of Neper, which is 4.10.2-22, but I am facing difficulties
because an error occurs repeatedly during the installation process. The
error is
***@***.***:/mnt/c/Ubantu_app_software$ cd neper-latest
***@***.***:/mnt/c/Ubantu_app_software/neper-latest$ cd
neper-main
***@***.***:/mnt/c/Ubantu_app_software/neper-latest/neper-main$
cd src
***@***.***:/mnt/c/Ubantu_app_software/neper-latest/neper-main/src$
mkdir build
***@***.***:/mnt/c/Ubantu_app_software/neper-latest/neper-main/src$
cd build
***@***.***:/mnt/c/Ubantu_app_software/neper-latest/neper-main/src/build$
cmake ..
-- The C compiler identification is GNU 13.3.0
-- The CXX compiler identification is GNU 13.3.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Found OpenMP_C: -fopenmp (found version "4.5")
-- Found OpenMP_CXX: -fopenmp (found version "4.5")
-- Found OpenMP: TRUE (found version "4.5")
-- Found Scotch: /usr/lib/x86_64-linux-gnu/libscotch.so
-- Found NLopt: /usr/lib/x86_64-linux-gnu/libnlopt.so
-- Neper is set to be installed in: /usr/local/bin and /usr/share
-- Configuring done (20.5s)
CMake Error at neper_t/CMakeLists.txt:31 (add_library):
Cannot find source file:
./net_tess/net_tess_opt/net_tess_opt_comp/net_tess_opt_comp_objective/net_tess_opt_comp_objective_fval/net_tess_opt_comp_objective_fval_gen/net_tess_opt_comp_objective_fval_gen_stat/net_tess_opt_comp_objective_fval_gen_stat1.c
Tried extensions .c .C .c++ .cc .cpp .cxx .cu .mpp .m .M .mm .ixx .cppm
.ccm .cxxm .c++m .h .hh .h++ .hm .hpp .hxx .in .txx .f .F .for .f77 .f90
.f95 .f03 .hip .ispc
CMake Error at neper_t/CMakeLists.txt:31 (add_library):
No SOURCES given to target: neper_t
The CMake Generate step failed. Build files cannot be regenerated
correctly."
I am actually clueless about how I can figure it out, and I have installed
the source zip code given below, which is taken from your website
suggestions. After extracting the file and following the command from
this installation file, I got the error message. What should I do right
now? Do I have to uninstall the Neper of the previous version, v4.10.1, or
can you provide me the latest version if possible? It would be really
helpful if you could look into this matter and provide me with a solution
for updating to the latest version.
Regards,
Noshin Tasnim Tuli
neper-main.zip
<https://drive.google.com/file/d/1Ec07BbnJO8skNwjuyW3hZmM1NNF_hprz/view?usp=drive_web>
On Thu, Oct 23, 2025 at 3:56 AM Romain Quey ***@***.***>
wrote:
> You are not using the latest version. Try again until you see Info :
> Version 4.10.2-22 in the header:
>
> $ ./neper
>
> ======================== N e p e r =======================
> Info : A software package for polycrystal generation and meshing.
> Info : Version 4.10.2-22
> Info : Built with: gsl|muparser|opengjk|openmp|nlopt|libscotch (full)
> ...
>
> —
> Reply to this email directly, view it on GitHub
> <#1027 (reply in thread)>,
> or unsubscribe
> <https://github.com/notifications/unsubscribe-auth/BSZBGI7ZQBKKW6LPMC7HITT3ZCJ4TAVCNFSM6AAAAACJ26JVM2VHI2DSMVQWIX3LMV43URDJONRXK43TNFXW4Q3PNVWWK3TUHMYTINZWGAYDGMY>
> .
> You are receiving this because you authored the thread.Message ID:
> ***@***.***>
>
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I am working on the attached image that I have provided and extracting information to make a .tesr file by taking help from the data file generated in Python. However, I am continuously facing the issue and error given in Neper is
I have tried multiple times to figure out the problem but have been unable to solve it. It would be very kind to provide suggestions and help regarding this case of solving. I have also attached the .tesr file in text format so please see below the link of this file. My ultimate goal to make mesh in this image.
Tesr_file.txt
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