Hi HDF users/ HDF support -
I have been facing some errors on compiling an existing source component
with a hdf5-1.6.7, however does work good using hdf5-1.6.5
Case: Error, Build using hdf5-1.6.7.
mex -I"include" -I"../shared/spchio1/include"
-I"../shared/hdf5cxx1/include" -I"/home/antoan/hdf5167/include"
-I"/usr/include/boost1.36" -I"/usr/include/boost1.36/boost/tr1/tr1"
-outdir ./build \
./mex/buildReads.cpp \
-L/opt/matlab/bin/glnxa64 -L/home/antoan/hdf5167/lib
-L../builds/lib \
-lReadBuilder -lspchio1 -lhdf5cxx1 \
-lhdf5_cpp -lhdf5 -lboost_regex-gcc34-mt
-lboost_filesystem-gcc34-mt
/usr/bin/ld: /home/antoan/hdf5167/lib/libhdf5_cpp.a(H5Exception.o):
relocation R_X86_64_32 against `std::basic_string<char,
std::char_traits<char>, std::allocator<char>
::_Rep::_S_empty_rep_storage' can not be used when making a shared
object; recompile with -fPIC
/home/antoan/hdf5167/lib/libhdf5_cpp.a: could not read symbols: Bad value
collect2: ld returned 1 exit status
mex: link of './build/buildReads.mexa64' failed.
make: *** [build/buildReads.mexa64] Error 1
note: earlier hdf5-1.6.7 was Configured using "./configure --enable-cxx
--prefix=/home/antoan/hdf5167 --enable-production"
Case: Success, Build using hdf5-1.6.5.
mex -I"include" -I"../shared/spchio/include" -I"../shared/hdf5cxx/include"
-I"/home/antoan/hdf5/include" -I"/usr/include/boost1.36"
-I"/usr/include/boost1.36/boost/tr1/tr1" -outdir ./build \
./mex/buildReads.cpp \
-L/opt/matlab/bin/glnxa64 -L/home/antoan/hdf5/lib -L../builds/lib
\
-lReadBuilder -lspchio -lhdf5cxx \
-lhdf5_hl -lhdf5 -lboost_regex-gcc34-mt
-lboost_filesystem-gcc34-mt
cp build/buildReads.mexa64 ../builds/lib
Any helpful pointers ?
Thanks
Anish