On Aug 14, 2013, at 8:55 PM, Ross Walker <ross.rosswalker.co.uk> wrote:
> Hi All,
>
> I think the following commits broke netcdf:
>
>
>
> Redhat EL6
>
> git clone gitosis.git.ambermd.org:amber.git
> cd amber
> export AMBERHOME=`pwd`
> ./configure -cuda gnu
> make -j8
> make test
>
> cd gb_ala3/ && ./Run.igb1_ntc1_min SPFP /scratch1/amber/include/netcdf.mod
> ../../../bin/pmemd.cuda_SPFP: error while loading shared libraries:
> libnetcdff.so.4: cannot open shared object file: No such file or directory
> ./Run.igb1_ntc1_min: Program error
>
>
> Ideas?
Well, is libnetcdff.so in $AMBERHOME/lib? What netcdf libraries are there? It may be that you need to force a reconfigure of netcdf. When you run configure, does it say that it is re-configuring netcdf?
Jason has some code in there that tries to avoid a reconfigure of netcdf. It never worked for me....always saying I needed to make netcdf even if I had just made it. But maybe this code is preventing your configure from re-making. netcdf. If so, remove netcdf.mod from $AMBERHOME/lib, and try the configure step again. Make sure that you get a libnetcdff library.
...dac
>
p.s. post your config.h file if above suggestions don't help. Or, check the LD_LIBRARY_PATH
which may need to include $AMBERHOME/lib. We can/should go back to using the static netcdf libraries.
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Received on Wed Aug 14 2013 - 19:00:02 PDT
