Install Libraries on JURECA (with Stages/2016a)

The libraries used by CLaMS are installed in directory /homec/jicg11/jicg1108

load older software stage

• module purge
  module use /usr/local/software/jureca/OtherStages
  module load Stages/2016a
  module load intel-para
  module load netCDF-Fortran

create directories

Create directories for libraries and modules

• mkdir ~/clams_lib_2016a
  mkdir ~/clams_mod_2016a

qhull

Possibly the name of the C-routine qhull_dll in file unix.c must be adjusted: for gcc it must be qhull_dll_ !

• cd ~/qhull
  make new  
  mv libqhull.a libqhull_gcc4.9.3.a
  
  cd ~/clams_lib_2016a
  ln -sf ../qhull/libqhull_gcc4.9.3.a ./libqhull.a
  
  cd ~
  chmod -R 755 qhull

numrec

• cd ~/numrec-f90
  
  mkdir lib_ifort16.0.2
  mkdir mod_ifort16.0.2
  mkdir obj_ifort16.0.2

  in Makefile.numrec:

  •    F90 = ifort
       objDir = obj_ifort16.0.2
       modDir = mod_ifort16.0.2
       libDir = lib_ifort16.0.2

  make -f Makefile.numrec  new

  The following error occurs:
  catastrophic error: **Internal compiler error: internal abort** Please report this error along with the circumstances in which it occurred in a Software Problem Report. Note: File and line given may not be explicit cause of this error. compilation aborted for src/sprsin.f90 (code 1)

  • => in Makefile.numrec: sprsin removed from progfilelist !!!

  cd ~/clams_lib_2016a
  ln -sf ../numrec-f90/lib_ifort16.0.2/libnumrec.a .
  
  cd ~/clams_mod_2016a
  ln -sf ../numrec-f90/mod_ifort16.0.2/nr.mod .
  ln -sf ../numrec-f90/mod_ifort16.0.2/nrtype.mod .
  ln -sf ../numrec-f90/mod_ifort16.0.2/nrutil.mod .
  
  cd ~
  chmod -R 755 numrec-f90

netcdf

• Netcdf is installed on Jureca for different C and Fortran compiler versions.
• Load netcdf module:

  module load netCDF-Fortran

• 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 paths).
• Compile Fortran program with NetCDF:

  ifort -o progname progname.f90 -lnetcdff -lnetcdf -lhdf5_hl -lhdf5 -lz

• After loading the netcdf module the following environment variables are expanded:

  • PATH includes directory with netcdf binaries (ncdump)

  • CPATH includes directory with include-files and netcdf-modules

  • LD_LIBRARY_PATH includes directories with all needed libraries (netcdf, hdf5, zlib etc)

utils

• Changes is ~/utils/mkincl/config/config.Linux_ifc:

  • libDir  := $(baseDir)/clams_lib_2016a
    modDir  := $(baseDir)/clams_mod_2016a

  cd ~/utils
  
  make clean
  make theLibrary
  
  cd ~/clams_lib_2016a
  ln -sf ../utils/lib_linux_ifc_16.0.2/libutils-icg1.a .
  
  cd ~/clams_mod_2016a
  ln -sf ../utils/mod_linux_ifc_16.0.2/* .
  
  cd ~
  chmod -R 755 utils

use older software stage in CLaMS

• Changes is ~/clams/mkincl/config/config.Linux_ifc:

  • libDir  := $(baseDir)/clams_lib_2016a
    modDir  := $(baseDir)/clams_mod_2016a