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gyacomo/matlab/write_sbash_marconi.m
f6e662f4cf0dgather_output

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write_sbash_marconi.m
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% Write the input script "fort.90" with desired parameters
INPUT = 'setup_and_run.sh';
fid = fopen(INPUT,'wt');
fprintf(fid,[...
'#!/bin/bash\n',...
'mkdir -p $CINECA_SCRATCH/HeLaZ/wk\n',...
...
'cd $CINECA_SCRATCH/HeLaZ/wk/\n',...
...
'mkdir -p ', BASIC.RESDIR,'\n',...
'cd ',BASIC.RESDIR,'\n',...
'cp $HOME/HeLaZ/wk/fort*.90 .\n',...
'cp $HOME/HeLaZ/wk/batch_script.sh .\n',...
'rm $HOME/HeLaZ/wk/fort*.90\n',...
...
SBATCH_CMD,...
'echo tail -f $CINECA_SCRATCH/HeLaZ',BASIC.RESDIR(3:end)]);
fclose(fid);
system(['cp setup_and_run.sh ',BASIC.RESDIR,'/.']);
% Write the sbatch script
INPUT = 'batch_script.sh';
fid = fopen(INPUT,'wt');
fprintf(fid,[...
'#!/bin/bash\n',...
'#SBATCH --job-name=',CLUSTER.JNAME,'\n',...
'#SBATCH --time=', CLUSTER.TIME,'\n',...
'#SBATCH --nodes=', CLUSTER.NODES,'\n',...
'#SBATCH --cpus-per-task=', CLUSTER.CPUPT,'\n',...
'#SBATCH --ntasks-per-node=', CLUSTER.NTPN,'\n',...
'#SBATCH --mem=', CLUSTER.MEM,'\n',...
'#SBATCH --error=err_',sprintf('%2.2d',JOB2LOAD+1),'.txt\n',...
'#SBATCH --output=out_',sprintf('%2.2d',JOB2LOAD+1),'.txt\n',...
'#SBATCH --account=FUA35_TSVVT421\n',...
'#SBATCH --partition=skl_fua_',CLUSTER.PART,'\n',...
'module load autoload hdf5 fftw\n',...
'srun --cpu-bind=cores ./../../../bin/',EXECNAME,' ',num2str(NP_P),' ',num2str(NP_KX),' ',num2str(JOB2LOAD+1)]);
fclose(fid);
system(['cp batch_script.sh ',BASIC.RESDIR,'/.']);
system('scp {fort*.90,setup_and_run.sh,batch_script.sh} ahoffman@login.marconi.cineca.it:/marconi/home/userexternal/ahoffman/HeLaZ/wk > trash.txt');
system('rm trash.txt');
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