As part of trying to build ABINIT, I need to build etsf-io which
requires netcdf. I've already compiled and tested netcdf-4.1.1 and
hdf5-1.8.5. Passed all tests. I run configure for etsf-io and it
fails:
./configure --with-netcdf-module-path=/share/apps/netcdf/4.1.1-gcc-4.6.1/include
--with-netcdf-ldflags="`/share/apps/netcdf/4.1.1-gcc-4.6.1/bin/nc-config
--libs`"
Where nc-config --libs returns
-L/share/apps/netcdf/4.1.1-gcc-4.6.1/lib -lnetcdf
-L/share/apps/hdf5/1.8.5-gcc-4.6.1//lib -lhdf5_hl -lhdf5 -lz -lm
Along with the following environment variables set:
export
PATH=/share/apps/gcc/4.6.1/bin:/share/apps/openmpi/1.4.3-gcc-4.6.1/bin:$PATH
export
LD_LIBRARY_PATH=/share/apps/gcc/4.6.1/lib64:/share/apps/gmp/5.0.2/lib:/share/apps/mpfr/3.0.1/lib:/share/apps/mpc/0.9/lib:/share/apps/openmpi/1.4.3-gcc-4.6.1/lib:/share/apps/gsl/1.15/lib:$LD_LIBRARY_PATH
This fails and the following is in config.log:
configure:3748: checking for netcdf library
configure:3765: gfortran -o conftest -g -O2
-I/share/apps/netcdf/4.1.1-gcc-4.6.1/include
-L/share/apps/netcdf/4.1.1-gcc-4.6.1/lib -l
netcdf -L/share/apps/hdf5/1.8.5-gcc-4.6.1//lib -lhdf5_hl -lhdf5 -lz
-lm conftest.f90 -lnetcdf >&5
/share/apps/netcdf/4.1.1-gcc-4.6.1/lib/libnetcdf.a(nc4var.o): In
function `nc4_reopen_dataset':
/root/workspace/netcdf-4.1.1/libsrc4/nc4var.c:51: undefined reference
to `H5open'
/root/workspace/netcdf-4.1.1/libsrc4/nc4var.c:51: undefined reference
to `H5P_CLS_DATASET_ACCESS_g'
/root/workspace/netcdf-4.1.1/libsrc4/nc4var.c:51: undefined reference
to `H5Pcreate'
/root/workspace/netcdf-4.1.1/libsrc4/nc4var.c:56: undefined reference
to `H5Pset_chunk_cache'
/root/workspace/netcdf-4.1.1/libsrc4/nc4var.c:60: undefined reference
to `H5Dclose'
/root/workspace/netcdf-4.1.1/libsrc4/nc4var.c:62: undefined reference
to `H5Dopen2'
/root/workspace/netcdf-4.1.1/libsrc4/nc4var.c:65: undefined reference
to `H5Pclose'
........
Any ideas?
David
--
Personally, I liked the university. They gave us money and facilities,
we didn't have to produce anything! You've never been out of college!
You don't know what it's like out there! I've worked in the private
sector. They expect results. -Ray Ghostbusters
