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| ## page was renamed from Juropatest | |
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| = CLaMS on JUROPATEST = | = CLaMS on JURECA = |
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| == Access to Juropatest == | [[ /Access | Access to JURECA ]] |
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| The Juropatest system is available by two Login nodes: {{{ ssh -X userid@juropatest1.fz-juelich.de ssh -X userid@juropatest2.fz-juelich.de }}} |
[[ /CVS | CVS on JURECA ]] |
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| == Software on Juropatest == | [[ /CompileExecute | Compile and execute CLaMS programs ]] |
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| * Access to installed software on JUROPATEST is organized through a hierarchy of modules. | [[ /Software | Software on JURECA ]] |
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| * Show what modules are compatible available to load right now (given the toolchain modules you have already loaded): {{{ module avail }}} * Load a specific version of a module {{{ module load <modulename>/<moduleversion> }}} * List what modules are currently loaded {{{ module list }}} * Unload a module {{{ module unload <modulename>/<moduleversion> }}} * Unload all modules {{{ module purge }}} * Find the location of a module within the module hierarchy {{{ module spider <modulename> }}} * Show how to load NetCDF: {{{ module -r spider '.*netCDF.*' }}} == CVS on JUROPATEST == Mount CVS archive to ENIX: {{{ ssh enix.icg.kfa-juelich.de mkdir ~/cvsroot sshfs userid@hostid.icg.kfa-juelich.de:/usr/nfs/local/archive ~/cvsroot }}} To use the CVS archive from ENIX, set the following environment variables: {{{ export CVSROOT=:ext:userid@enix.icg.kfa-juelich.de:/home/userid/cvsroot export CVS_RSH=ssh }}} == Using NetCDF on Juropatest == * Loading NetCDF Module {{{ module load intel-para netCDF-Fortran/4.4.2 or module load intel netCDF-Fortran/4.4.2 }}} * Compilerversions loaded by intel-para (21.05.2015): * gcc-Version 4.9.2 (GCC) * icc version 15.0.2 (gcc version 4.9.0 compatibility) * ifort version 15.0.2 * If the netcdf module is loaded, "ncdump" and "ncgen" can be used and compilation of programs using netcdf is possible (without specifying any library or include path). * Compile Fortran program with NetCDF: {{{ ifort -o progname progname.f90 -lnetcdff -lnetcdf -lhdf5_hl -lhdf5 -lz }}} == Compile and Execute CLaMS programs on Juropatest == * Load following modules {{{ module load intel-para netCDF-Fortran/4.4.2 }}} * Add current directory to PATH in .profile: {{{ PATH=.:$PATH export PATH }}} * The libraries used by CLaMS are installed in directory /homec/jicg11/jicg1108 * The CLaMS programs can be compiled with: {{{ make [useMPI=true] progname }}} * Create a batch script {{{ #!/bin/bash -x #SBATCH --nodes=1 #SBATCH --ntasks=4 #SBATCH --ntasks-per-node=4 #SBATCH --output=mpi-out.%j #SBATCH --error=mpi-err.%j #SBATCH --time=00:05:00 #SBATCH --partition=batch srun ./traj_mpi }}} * Submit job <<BR>> The job script is submitted using: {{{ sbatch <jobscript> }}} On success, sbatch writes the job ID to standard out. * Other Slurm Commands * ''squeue '' <<BR>> Show status of all jobs. * ''scancel <jobid>'' <<BR>> Cancel a job. * ''scontrol show job <jobid> '' <<BR>> Show detailed information about a pending, running or recently completed job. * ''scontrol update job <jobid> set ...'' <<BR>> Update a pending job. * ''scontrol -h'' <<BR>> Show detailed information about scontrol. * ''sacct -j <jobid>'' <<BR>> Query information about old jobs. * ''sprio'' <<BR>> Show job priorities. * ''smap'' <<BR>> Show distribution of jobs. For a graphical interface users are referred to '''llview'''. * '' sinfo'' <<BR>> View information about nodes and partitions. |
[[ /Netcdf | Using NetCDF ]] |
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[[ /Libraries2016aCreate | Create Libraries with Stages/2016a ]] [[ /Libraries2016aUse | Use Libraries with Stages/2016a ]] |
- Diff for "Jureca"