[Gate-users] Gate 8.2 with job splitter on Cluster

[Nikta Zarifyussefian]

Hello,


We have tried to run Gate with jobsplitter on our cluster.  for this, we have replaced the jobsplitter with the one provided in the link below to be compatible with  SLURM:


https://github.com/OpenGATE/Gate/commit/fe0f56b7843b2896942dda0f3220271de0543baa


and GATE v 8.2 has been compiled with below dependencies:

    ('Geant4', '10.05.p01', '-seq'),
    ('expat', '2.2.5'),
    ('CLHEP', '2.4.1.0'),
    ('ROOT', '5.34.36'),

builddependencies = [('CMake', '3.12.3')]

preconfigopts  = " export Geant4_DIR=$EBROOTGEANT4 && "
preconfigopts += " export ROOTCINT_EXECUTABLE=$EBROOTROOT/bin/rootcint && "
preconfigopts += " export ROOT_CONFIG_EXECUTABLE=$EBROOTROOT/bin/root-config && "
preconfigopts += " export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$EBROOTROOT/lib && "
preconfigopts += " export CPATH=$CPATH:$EBROOTROOT/include && "

configopts  = '-DBUILD_TESTING=ON '
configopts += '-DCMAKE_GATE_DOWNLOAD_BENCHMARKS_DATA=ON '
configopts += '-DCMAKE_GATE_USE_ECAT7=ON '
configopts += '-DCMAKE_GATE_USE_GPU=OFF '
configopts += '-DCMAKE_GATE_USE_ITK=ON '
configopts += '-DCMAKE_GATE_USE_RTK=ON '
configopts += '-DCMAKE_GATE_USE_STDC11=ON '
configopts += '-DCMAKE_GATE_USE_DAVIS=ON '
configopts += '-DCMAKE_GEANT4_USE_SYSTEM_CLHEP=OFF '


the slurm script is as follows:


!/bin/bash

#SBATCH --time=120:00:00
#SBATCH --nodes=10
#SBATCH --ntasks=10
#SBATCH --cpus-per-task=12
#SBATCH --mem=31000M


gjs -n 10 main.mac-> test.txt


the jobs are cancelled immediately with no output file. The test.txt file is as follows:


Summary of all outputs:
  ROOT       output is enabled
  ASCII      output is disabled
  ARF        output is disabled
  PROJECTION output is disabled
  ECAT7      output is disabled
  SINOGRAM   output is disabled
  SINOACCEL  output is disabled
  LMF        output is disabled
  CT         output is disabled
  GPUSPECT   output is disabled
Summary of all actors:
  ~~~
Number of enabled output: 1
Number of enabled actors: 0



Any help or comment is highly appreciated.


Regards

Nikta
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