On Mon, Apr 27, 2015 at 12:10 AM, Gianluca Sforna <[email protected]> wrote:
> Is there anyone with more Java-foo who can help me?
> I am trying to add the Java swig wrappers to the RPM packages I build
> for rdkit releases, but right now I am stuck at making the tests work.
>
> Basically, I am doing something like:
>
> - compile rdkit
> - set RDBASE, LD_LIBRARY_PATH=$RDBASE/lib, PYTHONPATH=$RDBASE,
> CLASSPATH=$LD_LIBRARY_PATH variables
> - run tests
>
>
That looks right to me
> Error messages indicate libraries are not found, like:
>
> There was 1 failure:
> 1) org.RDKit.AromaticTests
> java.lang.UnsatisfiedLinkError:
>
> /builddir/build/BUILD/rdkit-Release_2015_03_1beta1/Code/JavaWrappers/gmwrapper/libGraphMolWrap.so
> :
> /builddir/build/BUILD/rdkit-Release_2015_03_1beta1/Code/JavaWrappers/gmwrapper/libGraphMolWrap.so:
> undefined symbol: _ZTVN5RDKi
> t9MolDraw2DE
>
> Any idea?
>
This is an unusual one. The SWIG wrappers do not do dynamic linking on
linux, so it's not connected to LD_LIBRARY_PATH (the usual first guess).
What is the output you get if you remove the file:
/builddir/build/BUILD/rdkit-Release_2015_03_1beta1/Code/JavaWrappers/gmwrapper/libGraphMolWrap.so
and then build just the wrapper again with:
VERBOSE=1 make GraphMolWrap
I'm curious to see what the final link command looks like.
Best,
-greg
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