Convert hdf5 to netcdf4 in bash, R, python or NCL?

Question

Is there a quick and simple way to convert HDF5 files to netcdf(4) from the command line in bash? Alternatively a simple script that handle such a conversion automatically in R, NCL or python ?

Not all HDF5 files can be converted to netcdf4; for example, HDF5 variables don't need dimensions, but [netcdf4-python/](https://unidata.github.io/netcdf4-python/) says "before any netcdf4 variables can be created the dimensions they use must be created first." However I don't know of a program that converts what it can, nor even of a list of differences. — denis, May 20 '18 at 09:55

score 6 · Accepted Answer · edited May 06 '23 at 06:40

6

with netcdf-c library you can:

$ nccopy in.h5 out.nc

edited May 06 '23 at 06:40

ClimateUnboxed

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answered Feb 19 '18 at 16:40

Antonio S. Cofiño

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score 3 · Answer 2 · edited Feb 24 '20 at 00:30

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You can easily convert hdf5 format data to nedtcdf-4 data by this command which is given below:

ncks inputfile_name.h5 outputfile_name.nc

Note: this inputfile.h5 data I have got from mosdac website.

edited Feb 24 '20 at 00:30

Kevin Cazelles

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answered Feb 23 '20 at 20:53

Asraful

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score 0 · Answer 3 · answered Feb 19 '18 at 16:23

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NCL's ncl_convert2nc function is my go-to for this type of problem: https://www.ncl.ucar.edu/Document/Tools/ncl_convert2nc.shtml

answered Feb 19 '18 at 16:23

N1B4

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I wonder if these useful aspects of the NCL language will also survive the translation to pyncl ? – ClimateUnboxed Jun 02 '21 at 08:46

Convert hdf5 to netcdf4 in bash, R, python or NCL?

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