Use JUBE for messy-clams runs

Installation

• on JURECA:

  module load JUBE

• Download and installation on cluster workstation:

  • http://www.fz-juelich.de/ias/jsc/EN/Expertise/Support/Software/JUBE/JUBE2/jube-installation_node.html

  • JUBE is installed in ~/.local/bin

  • add ~/.local/bin to $PATH

Required files

• Dummy makefile ${BASEDIR}/messy/mbm/clams/Makefile_jube

• Dummy MESSy script ${BASEDIR}/messy/util/xmessy_mmd.jube

• Dummy namelist directory ${BASEDIR}/messy/nml/MBM/clams_jube

  • (dir_dummy_nml specified in namelistParam in JUBE script)

• JUBE script, e.g. ${BASEDIR}/messy/util/xmessy_jube_clim.xml

JUBE script

• Example for JUBE script:
  

  • messy-clams/messy/util/xmessy_jube_clim.xml

• Inside the script there is one parameterset for each clams namelist.
• The namelist input is specified in these parametersets.

• The dummy entries in the namelists ${BASEDIR}/messy/nml/MBM/clams_jube/*.nml will be substituted with this input and copied to the namelist directory (NML_SETUP).
  Attention: Namelists in directory NML_SETUP will be overwritten if they already exist !

• The specifications in the parametersets jobscriptParameter and xmessy_mmd are used to substitute the dummy entries in the messy script ${BASEDIR}/messy/util/xmessy_mmd.jube.

• The messy-script xmessy_mmd.jube with substitutions is copied to the working directory (name: xmessy_mmd.$EXP_NAME).

Run JUBE script

• copy JUBE script to working directory and change namelist data in the script
• run JUBE script:

  jube run xmessy_jube_clim.xml [-t tag]

• If the script is called with tag comp, the basemodel clams is recompiled.
  Attention: The Makefile in subdirectory clams is replaced by the dummy makefile Makefile_jube with the current substitutions (parameterset makeParam)

JUBE commands

• jube run xmessy_jube_clim.xml [-t tags]
  
  jube continue messy_bench
   
  jube analyse messy_bench  [--id ID]
  jube result messy_bench
  
  jube info messy_bench [--id ID] [--step xxx]
  jube log messy_bench [--id ID] [--command cmd]
  
  jube help keyword
  
  jube comment [-a] "..." messy_bench [-i ID]
  jube comment -i ID -- "..." messy_bench

Online documentation

https://apps.fz-juelich.de/jsc/jube/jube2/docu/index.html

Run with Scalasca (on JURECA)

• module load Scalasca
  
  jube run messy_clim.xml -t time scorep_comp scorep
  
  scalasca -examine messy_bench/00000x/000003_exe/work/scorep_clams24_run
  scalasca -examine -s messy_bench/00000x/000003_exe/work/scorep_clams24_run

-> scorep.score is created