software:himster2
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| Both sides previous revisionPrevious revisionNext revision | Previous revision | ||
| software:himster2 [2019/09/11 10:04] – himuser | software:himster2 [2022/01/14 18:44] (current) – external edit 127.0.0.1 | ||
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| - | === SSH connection to the git repository | + | === Source code checkout |
| - | Set up the ssh connection to '' | ||
| - | |||
| - | \\ | ||
| - | === Source code checkout === | ||
| < | < | ||
| git clone https:// | git clone https:// | ||
| </ | </ | ||
| - | Alternatively (not preferred), check out from the fileserver | + | Alternatively (not preferred), check out from the fileserver. \\ |
| + | |||
| + | Set up the ssh connection to '' | ||
| + | Then check out: | ||
| < | < | ||
| git clone agmaas@bwec-fileserver:/ | git clone agmaas@bwec-fileserver:/ | ||
| Line 18: | Line 17: | ||
| \\ | \\ | ||
| === Environment setup === | === Environment setup === | ||
| - | load module and set the variable FAIRSOFT_BUILD_DIR: | + | load module and set the variable FAIRSOFT_BUILD_DIR:\\ |
| + | new since Nov 2020: | ||
| < | < | ||
| - | module load fairsoft/ | + | export MODULEPATH=$MODULEPATH:/ |
| - | export FAIRSOFT_BUILD_DIR=/ | + | module load fairsoft/ |
| + | export FAIRSOFT_BUILD_DIR=/ | ||
| </ | </ | ||
| + | |||
| or | or | ||
| < | < | ||
| Line 38: | Line 40: | ||
| In the following a minimum script to run a single job on slurm is given. | In the following a minimum script to run a single job on slurm is given. | ||
| + | To submit your job use | ||
| + | < | ||
| + | $ sbatch myjobscript | ||
| + | </ | ||
| + | |||
| + | |||
| + | Example for myjobscript: | ||
| < | < | ||
| Line 55: | Line 64: | ||
| #SBATCH -A m2_him_exp | #SBATCH -A m2_him_exp | ||
| - | + | ||
| - | + | # A script | |
| - | # Launch the executable | + | # environment settings |
| - | # needed to run the program, as if you would run it just after login on himsterII. | + | # run it just after login on himsterII. Something like |
| - | # Something like | + | # |
| # module load fairsoft/ | # module load fairsoft/ | ||
| # export FAIRSOFT_BUILD_DIR=... | # export FAIRSOFT_BUILD_DIR=... | ||
| + | # | ||
| # should be in there. Think about what you need. | # should be in there. Think about what you need. | ||
| # | # | ||
| - | # The file output.log is where all the shell output of the job will be saved. | ||
| - | srun -o output.log myscript.sh | + | source mysetenv.sh |
| + | |||
| + | # Submit the executable with the needed arguments (it might also be a script) | ||
| + | |||
| + | srun < | ||
| </ | </ | ||
| Line 75: | Line 88: | ||
| Provide the possibility to have a "dry runs" where all scripts are prepared and can be checked, without actually starting the jobs. That is very useful to avoid having to chase running jobs with wrong settings. | Provide the possibility to have a "dry runs" where all scripts are prepared and can be checked, without actually starting the jobs. That is very useful to avoid having to chase running jobs with wrong settings. | ||
| + | |||
| + | The following code can be executed with: | ||
| + | < | ||
| + | $ ./ | ||
| + | </ | ||
| < | < | ||
software/himster2.1568196260.txt.gz · Last modified: 2022/01/14 18:44 (external edit)