lcomet_test2

#!/bin/bash

number_of_tasks=128    #total number of processors: must match npe in parameters.f90
ntasks_per_node=16     #number of processors per node. 
number_of_nodes=8      #number of nodes*ntasks_per_node >= number_of_tasks

sourdir=/oasis/scratch/comet/oasselin/temp_project/test2/source/   #Directory for the source
datadir=/oasis/scratch/comet/oasselin/temp_project/test2/output/   #Direction for the output

#Create those directorues is non existent
mkdir -p $sourdir
mkdir -p $datadir

#Move to source directory 
cd $sourdir

#Load netCDF module
export MODULEPATH=/home/oasselin/modulefiles:$MODULEPATH
module load netcdf/v4.7.4f4.5.3

#Execution step
cat > EXEC_STEP << EXEC
#!/bin/sh 

#SBATCH --job-name="test2"
#SBATCH --output="/home/oasselin/monitor/test2.o%j.%N"
#SBATCH --partition=compute
#SBATCH --nodes=$number_of_nodes
#SBATCH --ntasks-per-node=$ntasks_per_node
#SBATCH --export=ALL
#SBATCH -t 02:00:00              
#SBATCH -A TG-OCE190014 

cd $datadir                                                                                                                                                                            
cp $sourdir/exec_full $datadir   
ibrun -n $number_of_tasks -v ./exec_full
                                                                                                                                                       
EXEC

#Compiling step
cat > COMPILE_STEP << COMPILE
#!/bin/bash                                                                                                                                               

#Copy all source files to source directory in scratch space                                                                                                                                                       
cd $sourdir
cp $HOME/qg_ybjp/*.f90 .            #Keeps a record of source files used
cp $HOME/qg_ybjp/init_test2/* .    #Keeps a record of source files used
cd $datadir
cp $HOME/qg_ybjp/init_test2/* .    #Bring initial fields for initialization                                                                                                                                                                                                 
cd $sourdir

#Compile with MPIf90                                                                                                                                       
mpif90 -mkl parameters_test2.f90 mpi.f90 fft.f90 files.f90 derivatives.f90 elliptic.f90 special.f90 diagnostics.f90 init.f90 -I$NETCDFHOME/include -I$HDF5HOME/include -L$NETCDFHOME/lib -L$HDF5HOME/lib IO_ncf.f90  main_waqg.f90 -o exec_full -lnetcdf -lnetcdff

COMPILE

chmod 755 COMPILE_STEP         #Allow compilation
./COMPILE_STEP                 #Compile
sbatch EXEC_STEP               #Comment this line if you want to compile code without executing