Problem with installing GranOO on cluster

[dxvn818]

Hello,

I have problem with installing GranOO on cluster related to VTK. I have downloaded VTK-8.2.0 source code and built. On cluster there are following directories:
       granoo
       VTK-8.2.0

When I compile GranOO, it still shows the following error:


I try setting VTK environment in the CMakeList.txt in /granoo/tags/2.0/CMake/CMakeList.txt as:

      SET(VTK_DIR "/home/dxvn818/VTK-8.2.0" CACHE PATH "VTK directory override" FORCE)

but it does not work.

Could you please give me a guide to fix it ?

Thank you,
Vinh

[Cédric Hubert]

Hi Vinh,

Try to help CMake finding it this way:
&> cmake /path/to/GranOO -DCMAKE_PREFIX_PATH="/home/dxvn818/VTK-8.2.0"

Your VTK install directory is supposed to contain the /lib, /include, etc. directories.

Cédric

[dxvn818]

Hi Cédric,

It works. Thank you very much.

Vinh

[dxvn818]

Hello Cédric,

When I tried to submita simple test job on cluster which is attached in this post, although I built successfully program, it shows the following error related to libboost:

/home/dxvn818/granoo/workspace/Tensile_DE/build/tension.exe: error while loading shared libraries: libboost_chrono.so.1.62.0: cannot open shared object file: No such file or directory

I have no experience on running job on cluster while the cluster admin is busy now. Do you know what 's wrong with it ?

Thank you,

Vinh

job.sh

[Damien André]

Hello,
There is some problems with your dynamic library files. I am not able to solve your problem. You probably must talk with your  server admin to solve this issue. It does not concern granoo.... this is  a "sys admin" problem !

[Cédric Hubert]

Hi Vinh,

That's not specific to a cluster. It's just that the libraries are not installed in a default path, or even installed in your home directory, or somewhere else.

Locate the libboost_chrono.so.1.62.0 library.
Once found, if the library path is "/path/to/user/libraries/libboost_chrono.so.1.62.0", add the following line in your job.sh script:
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/path/to/user/libraries

If not, I guess you need the help of the cluster administrator...

[dxvn818]

Hello Damien and Cédric,

Thanks for your reply. After adding the library path as Cédric suggested, it still shows the same error.I have contacted server admin for help.

Vinh

[dxvn818]

Hello,

I would like to ask if granoo-cooker tool, which is used to generate discrete domain, can only run in single core ?

Vinh

[Damien André]

Yes, it runs only on one core  :(
Sorry.

[Mr.Happy]

Hi,

So the granoo-cooker tool can only run on one core. What about main algorithm of Granoo (the DEM part), can it run on multiple cores?

Thanks!

[Damien André]

GranOO can be ran as multithread. For example, if you you set :

<GranOO Version="2.0" .... ThreadNumber="4"> 
Some plugins will be ran in //

To get the list of multithreaded plugins, you can read the plugin documentation.

[Mr.Happy]

I set ThreadNumber="10", but i did not notice any difference in the simulation. Any advice?

[Damien André]

Hello,
Only few numbers of plugins are multithreaded. As i wrote before :

Damien André wrote

To get the list of multithreaded plugins, you can read the plugin documentation.