build with latest netcdf

[aekiss]

from https://opus.nci.org.au/display/Help/Gadi%3A+NCI%27s+New+Supercomputer
"Only the latest versions of third-party software packages will be built and installed on the new HPC system."

so I guess we should get NCI to install netcdf 4.7.0 and build with that?

Also see #157, COSIMA/libaccessom2#24

[russfiedler]

Also if/when we decide to use PIO in CICE we'll need 4.7.0.

[aekiss]

Update - netCDF 4.7.1 has now been released.
And version 4.5.1 of the netCDF-Fortran library.

[aekiss]

@russfiedler: "PIO can use NetCDF (version 4.6.1+)": https://github.com/NCAR/ParallelIO

[aekiss]

link to related PIO issue in CICE: COSIMA/cice5#34

[russfiedler]

@aekiss Actually, the problem is with the HDF5 library that NCI have linked V4.6.1 to. The bug is fixed in 1.10.4. It's likely we don't trigger the bug as it's related to processors failing to take part in the collective writes I think, but you never know...

https://groups.google.com/forum/#!topic/parallelio/LE7qnAlhP38

[aekiss]

note to self: NetCDF 4.7.1. install request: https://track.nci.org.au/servicedesk/customer/portal/5/HELP-163544

[aekiss]

The NetCDF version would need to be updated in numerous places:

${ACCESS_OM_DIR}/src/mom/bin/environs.nci
${ACCESS_OM_DIR}/src/cice5/bld/config.nci.auscom.360x300 
${ACCESS_OM_DIR}/src/cice5/bld/config.nci.auscom.1440x1080 
${ACCESS_OM_DIR}/src/cice5/bld/config.nci.auscom.3600x2700 
${ACCESS_OM_DIR}/src/libaccessom2/build_on_raijin.sh 
${ACCESS_OM_DIR}/src/libaccessom2/build/oasis3-mct-prefix/src/oasis3-mct/util/make_dir/config.nci

Have I missed anything?

libcheck.sh is intended to give us an overview of all this.

[aekiss]

Netcdf 4.7.1 is now installed on raijin on top of hdf5/1.10.5. The parallel version, 4.7.1p (and hdf5/1.10.5p), is build with openmpi/4.0.1.

[aekiss]

Netcdf 4.7.1 was compiled with Intel 19 so the model components all need to be compiled with this version to use Netcdf 4.7.1.

[aekiss]

#178 builds with
intel-compiler/2019.5.281
netcdf/4.7.1
openmpi/4.0.1

[aekiss]

netCDF 4.7.3 is the latest currently installed on gadi, and we're currently compiling with netcdf/4.7.1
netCDF 4.7.4 was released on 2 April. Should we request this for gadi?
The latest NetCDF-Fortran release is v4.5.2 (newer than NetCDF-Fortran v4.5.1 that goes with netCDF 4.7.1).

[aekiss]

From @nichannah on slack

the latest version of netcdf (4.7.4) supports compression with parallel I/O writes

https://www.unidata.ucar.edu/software/netcdf/docs/RELEASE_NOTES.html#autotoc_md1
Compression will be great to have with PIO in CICE (COSIMA/cice5#34).

[aekiss]

closing - we're now building access-om2 with netcdf/4.7.4 and netcdf/4.7.4p.