= Visualisation and Animation of ERA5 Reanalysis Climate Data =
== Prerequisites ==
=== NetCDF/HDF5 (on JURECA) ===
How to find out what modules to load for NetCDF/HDF5:
{{{
#!bash
module spider netcdf
module spider hdf5
}}}

Load modules e.g. by:

{{{
#!bash
module load Stages/2017a  GCC/5.4.0  ParaStationMPI/5.1.9-1
module load netCDF/4.4.1.1
module load HDF5/1.8.18
}}}

Just some examples of hot to use h5dump:
{{{
#!bash
h5dump -H wrf_rv025_r07_test.wrfout_3km.20100702130000-20100703000000.h5 | grep DATASET
h5dump -a /T/description test.h5 
h5dump -d XLAT -c "1,1,100" test.h5 # shows the 100 first entries from the 3d array XLAT
}}}

How to find out the version of a netcdf file:
{{{
#!bash
ncdump -k foo.nc
}}}
If ncdump returns netCDF-4, or netCDF-4  classic  model, then congratulations, you already have an HDF file, as netCDF-4 is the netCDF data model implemented using HDF5 as the storage layer. These files can be ready by the HDF library version 1.8 or later, and from what I can tell, pytables. If ncdump returns classic or 64-bit offset, then you are using netCDF-3 and will need to convert to netCDF-4 (and thus HDF). The good news is that if you have netCDF installed, you can do the conversion pretty easily:
{{{
#!bash
nccopy -k 4 foo3.nc foo4c.nc
}}}

Graphical hdf5 viewer:
HDFView is a very handy tool to investigate hdf5 files. To open HDFView on JURECA, either click on the HDFView icon on the desktop. Or launch HDFView by
{{{
#!bash
/usr/local/jsc/etc/xdg/scripts/launch_hdfview.sh
}}}

=== Python on JURECA ===
To use Python on JURECA, you have to load some modules first, e.g.
{{{
#!bash
module use otherstages
module --force purge && module load Stages/Devel-2017b  GCC/7.2.0  ParaStationMPI/5.2.0-1 h5py/2.7.1-Python-2.7.14
}}}