[MITgcm-support] Using NetCDF

[Jody Klymak]

`ld` is your linker.  It links your libraries to the source code (i.e. 
the netcdf libraries in this case).

You need to lead `libmfhdf.so.0` and `libdf.so.0.`  They should be in 
`/home/sgoodnight/miniconda3/envs/ncl_stable/lib/` If they are, but 
`libnetcdf` can’t link to them, my guess would be that you didn’t 
install `libnetcdf` properly (i.e. maybe used `pip` instead of `conda 
install`).  Suggest you uninstall netcdf and try again with `conda`.  
Conda handles external dependencies like `netcdf4` quite smoothly, but 
if you have old cruft on your system you will have problems.

Since you are using miniconda3, you might want to create a [new 
environment](https://docs.continuum.io/ae-notebooks/user/anaconda) and 
start again and re-direct genmake2 to the new clean directory.

Cheers,   Jody

On 29 Jun 2017, at 19:02, Seth Goodnight wrote:

> Jody,
>
> Thanks for the quick response. I've updated my hdf4/5 libraries and 
> checked
> to make sure NetCDF is correctly installed but my problem still 
> persists. I
> think I've narrowed down the problem to some function "ld" in 
> /usr/bin/ not
> having the files libmfhdf.so.0 & libdf.so.0 it needs as input. Is 
> there
> some way to fix this problem using -rpath or -rpath-link as suggested 
> by
> genmake.log?
>
> Thanks
>
> PS I correctly attached the aforementioned files this time. Changes 
> were
> made to the optfile as I tried to troubleshoot.
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