trilinos-release-12-6-b (and likely master) fail with Seacas and static libraries

[BarrySmith]

Inside the guts of Seacas it puts the hdf5 libraries before the netcdf libraries for some links and thus fails with static libraries. For example

[ 24%] /scratch/balay/petsc/arch-linux-xsdk-dbg/bin/mpicxx -g -std=c++11 -g CMakeFiles/aprepro.dir/aprepro.C.o -o aprepro -L/nfs/software/linux-ubuntu_precise_amd64/apps/packages/gcc-4.9.0/lib/gcc/x86_64-unknown-linux-gnu/4.9.0 -L/nfs/software/linux-ubuntu_precise_amd64/apps/packages/gcc-4.9.0/lib/gcc -L/nfs/software/linux-ubuntu_precise_amd64/apps/packages/gcc-4.9.0/lib64 -L/nfs/software/linux-ubuntu_precise_amd64/apps/packages/gcc-4.9.0/lib -rdynamic ../../libraries/suplib/libsuplib.a ../../libraries/aprepro_lib/libaprepro_lib.a ../../../../liblast_lib.a ../../libraries/supes/libsupes.a ../../libraries/exodus_for/forbind/libexodus_for.a ../../libraries/exodus/cbind/libexodus.a -Wl,-rpath,/scratch/balay/petsc/arch-linux-xsdk-dbg/lib -L/scratch/balay/petsc/arch-linux-xsdk-dbg/lib -lhdf5hl_fortran -lhdf5_fortran -lhdf5_hl -lhdf5 -lz -Wl,-rpath,/scratch/balay/petsc/arch-linux-xsdk-dbg/lib -L/scratch/balay/petsc/arch-linux-xsdk-dbg/lib -lnetcdf -lm -L/scratch/balay/petsc/arch-linux-xsdk-dbg/lib -L/usr/lib/gcc/x86_64-linux-gnu/4.6 -L/usr/lib/x86_64-linux-gnu -L/lib/x86_64-linux-gnu -L/nfs2/petsc/soft/linux-Ubuntu_12.04-x86_64/clang-3.8.0/lib -lmpifort -lgfortran -lm -L/nfs/software/linux-ubuntu_precise_amd64/apps/packages/gcc-4.9.0/lib/gcc/x86_64-unknown-linux-gnu/4.9.0 -L/nfs/software/linux-ubuntu_precise_amd64/apps/packages/gcc-4.9.0/lib/gcc -L/nfs/software/linux-ubuntu_precise_amd64/apps/packages/gcc-4.9.0/lib64 -L/nfs/software/linux-ubuntu_precise_amd64/apps/packages/gcc-4.9.0/lib -lgfortran -lm -lquadmath -lm -lmpicxx -lstdc++ -L/scratch/balay/petsc/arch-linux-xsdk-dbg/lib -L/usr/lib/gcc/x86_64-linux-gnu/4.6 -L/usr/lib/x86_64-linux-gnu -L/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -L/nfs2/petsc/soft/linux-Ubuntu_12.04-x86_64/clang-3.8.0/lib -ldl -lmpi -lpthread -lrt -L/usr/lib/x86_64-linux-gnu -lgcc_s -ldl -lmpifort -lgfortran -lquadmath

Entire output from build is attached
trilinos.configure.txt

This needs to be fixed for Amanzi xsdk builds.

@bartlettroscoe @jwillenbring @amklinv @jasonsarich

[bartlettroscoe]

Yea, others have reported a similar problem (see #156). I am not sure where the bug exists yet but the workaround is pretty simple. You just list the HDF5 includes and libraries with the NetCDF includes and libraries like:

-DNetCDF_INCLUDE_DIRS="${NETCDF_ROOT}/include;${HDF5_ROOT}/include"
-DNetCDF_LIBRARY_DIR="${NETCDF_ROOT}/lib;${HDF5_ROOT}/lib"
-DNetCDF_LIBRARY_NAMES="netcdf;hdf5_hl;hdf5_fortran;hdf5;z"

Of course you can directly set these with TPL_NetCDF_INCLUDE_DIRS and TPL_NetCDF_LIBRARIES as well.

I know this is a hack but it is pretty simple to do for now.

This may considered a defect in TriBiTS (see TriBITSPub/TriBITS#115). Likely something I should look into in more detail soon.

[BarrySmith]

Thanks, will test this shortly.

[BarrySmith]

The hack suggested by Ross works. I have changed Trilinos.py to over list the hdf5 file to make sure the links work with static libraries.

[gsjaardema]

This will probably now work correctly with the addition of the improved NetCDF package find script.
Closing until we hear differently.