Usage Guide
Table of Contents
Partitions on system Lise
Compute system Lise at NHR@ZIB contains different Compute partitions for CPUs and GPUs. Your choice for the partition affects
- Login nodes,
- slurm partition (Compute partitions and Accounting), and
- Software.
Login nodes
To login to system Lise, please
- choose a login node associated to your Compute partitions and
- use authentication via SSH Login.
Software and environment modules
The webpage Software gives you information about available software on the NHR systems.
NHR provides a number of compilers and software packages for parallel computing and (serial) pre- and postprocessing:
- Compilers: Intel, GNU
- Libraries: NetCDF, LAPACK, ScaLAPACK, BLAS, FFTW, ...
- Debuggers: Allinea DDT, Roguewave TotalView...
- Tools: octave, python, R ...
- Visualisation: mostly tools to investigate gridded data sets from earth-system modelling
- Application software: mostly for engineering and chemistry (molecular dynamics)
Environment Modules are used to manage the access to software/libraries. The module
command offers the following functionality.
- Show lists of available software
- Enables access to software in different versions
blogin1:~ $ module avail ... blogin1:~ $ module load intel Module for Intel Parallel Studio XE Composer Edition (version 2019 Update 5) loaded. blogin1:~ $ module list Currently Loaded Modulefiles: 1) sw.skl 2) slurm 3) HLRNenv 4) intel/19.0.5(default)
To avoid conflicts between different compilers and compiler versions, builds of most important libraries are provided for all compilers and major release numbers.
File systems
Each complex has the following file systems available. More information about Quota, usage, and best pratices are available on Fixing Quota Issues. Hints for data transfer are given here.
- Home file system with 340 TiByte capacity containing
$HOME
directories/home/${USER}/
- Lustre parallel file system with 8.1 PiByte capacity containing
$WORK
directories/scratch/usr/${USER}/
$TMPDIR
directories/scratch/tmp/${USER}/
- project data directories
/scratch/projects/<projectID>/
(not yet available)
- Tape archive with 120 TiByte capacity (accessible on the login nodes, only)