Dear Fanny,
what format of input coverageStore are you trying to encode as NetCDF?
NetCDF output is only supported for input coverages being served by a
coverageStore leveraging on StructuredGridCoverage2DReader.
http://docs.geoserver.org/stable/en/user/extensions/netcdf-out/index.html#current-limitations
StructuredGridCoverage2DReaders expose the underlying dimensions so that
the GetCoverage of WCS2.0 can setup a stack (a GranuleStack) of
GridCoverages and assign related input dimension values to each element of
the stack.
Trivial example:
GridCoverage2D #0 of the stack is related to time=T0 and elevation=Z0,
GridCoverage2D #1 of the stack is related to time=T0 and elevation=Z1,
GridCoverage2D #2 of the stack is related to time=T1 and elevation=Z0,
GridCoverage2D #3 of the stack is related to time=T1 and elevation=Z1)
This information will then be used by the NetCDF Writer to setup proper
NetCDF dimensions on output and setup proper multidimensional data array.
So if you have an ImageMosaic on top of a Multidimensional dataset (having
different times and elevations, as an instance) you can encode it as a
NetCDF.
Indeed, at the moment, the only Coverage Reader formats implementing a
StructuredGridCoverage2DReader are the ImageMosaic and the NetCDF itself.
To summarize: the "*java.lang.IllegalArgumentException: NetCDF encoding
only supports granuleStack coverages" *isn't related to a NetCDF4 native
library issue.
That is a different topic:
*NetCDF-4 C library not present (jna_path='null', libname='netcdf') *is a
simple warning reporting that your GeoServer won't be able to encode output
to NetCDF4-Classic whilst it will be able to encode NetCDF3.
If you want to have NetCDF4-C supported (as an instance to leverage on HDF5
compression capabilities), you need to properly install native libraries.
http://docs.geoserver.org/2.8.1/user/extensions/netcdf-out/nc4.html#linux-install
I know you have already checked these instructions but at the moment I have
no additional feedbacks on the Native Library building topic.
We never encountered that problem before. (It seems it is unable to find
the required HDF5 lib so you may want to double check all the dependencies
are available).
Cheers,
Daniele
On Fri, Oct 28, 2016 at 9:34 AM, MARTIN, FANNY <[email protected]>
wrote:
> Dear all,
>
> While trying to retrieve a NetCDF4 thanks to WCS request, I get the
> following error:
> *java.lang.IllegalArgumentException: NetCDF encoding only supports
> granuleStack coverages*
> *NetCDF encoding only supports granuleStack coverages*
>
> I guess the error is due to the failed installation of the NetCDF-4 Native
> Library. I get the following error when strating Geoserver:
> *NetCDF-4 C library not present (jna_path='null', libname='netcdf').*
>
> And this one at the installation of the NetCDF C Library:
> *checking for library containing H5Fflush... configure: error: Can't find
> or link to the hdf5 library. Use --disable-netcdf-4, or see config.log for
> errors.*
> *make: *** No rule to make target 'check'. Stop.*
>
> I try to install the NetCDF Output Format plugin in a Geoserver 2.8.1
> Tomcat installation. For this purpose, I have followed the instruction
> given at
> *http://docs.geoserver.org/2.8.1/user/extensions/netcdf-out/nc4.html#nc4*
> <http://docs.geoserver.org/2.8.1/user/extensions/netcdf-out/nc4.html#nc4>.
> After some searchs on the internet, the problem is mostly solved with the
> use of the CPPFLAGS and LDFLAGS, flags that I already use... Any other
> hints welcome !
>
> Thanks in advance,
> Fanny
>
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