Hi Felipe, > I am having problem building netcdf4.2 on suse server 11 with ifort. I have > installed zlib1.2.6 and hdf188.8.131.52. Apparently everything is installed > correctly. However, when I tried to make check netcdf I am getting these > errors: > > mv -f $depbase.Tpo $depbase.Po > /bin/sh ../libtool --tag=CC --mode=link gcc -g -O2 -L/usr/lib -o > tst_h_dimscales4 tst_h_dimscales4.o -lhdf5_hl -lhdf5 -lm -lz > libtool: link: gcc -g -O2 -o tst_h_dimscales4 tst_h_dimscales4.o > -L/usr/lib /usr/lib/libhdf5_hl.so /usr/lib/libhdf5.so -lrt -lm -lz > make: Leaving directory `/data1/netcdf-4.2/h5_test' > make check-TESTS > make: Entering directory `/data1/netcdf-4.2/h5_test' > ./tst_h_files: error while loading shared libraries: libhdf5_hl.so.7: > cannot open shared object file: No such file or directory > FAIL: tst_h_files > ./tst_h_files2: error while loading shared libraries: libhdf5_hl.so.7: > cannot open shared object file: No such file or directory > FAIL: tst_h_files2 ... > ================================================ > 26 of 26 tests failed > Please report to address@hidden > ================================================ > make: *** [check-TESTS] Error 1 > make: Leaving directory `/data1/netcdf-4.2/h5_test' > make: *** [check-am] Error 2 > make: Leaving directory `/data1/netcdf-4.2/h5_test' > make: *** [check-recursive] Error 1 > > When checking the net I found descriptions of the same error and it was > said to include LD_LIBRARY_PATH what I did. That won't work in this case for two reasons: 1. You installed libraries in /usr/lib, and that is already a default search directory for shared libraries, so it never needs to be added to LD_LIBRARY_PATH. 2. To use the Intel compilers, you probably had to source some shell command script that would set LD_LIBRARY_PATH to a list of directories containing run-time libraries for ifort and perhaps other Intel compilers. By setting LD_LIBRARY_PATH to /usr/lib, *after* running the Intel command script, those library paths are no longer set, which explains why the netCDF configure script failed with > Then I ran the configure command with the following command: > CPPFLAGS=-I/usr/include LDFLAGS=-L/usr/lib ./configure --disable-doxygen > --prefix=/usr > > But when I do that I get the errror: > configure: netCDF 4.2 ... > checking whether the C compiler works... no > configure: error: in `/data1/netcdf-4.2': > configure: error: C compiler cannot create executables because, as the config.log shows, > configure:4094: checking whether the C compiler works > configure:4116: gcc -I/usr/include -L/usr/lib conftest.c >&5 > /usr/lib64/gcc/x86_64-suse-linux/4.3/../../../../x86_64-suse-linux/bin/as: > error while loading shared libraries: libimf.so: cannot open shared object > file: No such file or directory and "libimf.so" is required by the Intel compilers, installed in some directory that would have been in LD_LIBRARY_PATH. > configure:4120: $? = 1 > configure:4158: result: no > configure: failed program was: > | /* confdefs.h */ > | #define PACKAGE_NAME "netCDF" > | #define PACKAGE_TARNAME "netcdf" > | #define PACKAGE_VERSION "4.2" > | #define PACKAGE_STRING "netCDF 4.2" > | #define PACKAGE_BUGREPORT "address@hidden" > | #define PACKAGE_URL "" > | #define PACKAGE "netcdf" > | #define VERSION "4.2" > | #define NCIO_MINBLOCKSIZE 256 > | #define USE_FSYNC 1 > | #define DEFAULT_CHUNK_SIZE 4194304 > | #define MAX_DEFAULT_CACHE_SIZE 67108864 > | #define DEFAULT_CHUNKS_IN_CACHE 10 > #define CHUNK_CACHE_SIZE 4194304 > | #define CHUNK_CACHE_NELEMS 1009 > | #define CHUNK_CACHE_PREEMPTION 0.75 > | /* end confdefs.h. */ > | > HERE IS MY ENV VARIABLES. ... > declare -x LD_LIBRARY_PATH="/usr/lib" That's the one that's the problem, preventing the Intel C compiler or Fortran compiler from working. If you had a directory other than the default "/usr/lib" that you wanted to add to LD_LIBRARY_PATH, such as "/usr/local/lib", a better way to set it so that the existing LD_LIBRARY_PATH entries would still be preserved, would be something like LD_LIBRARY_PATH=/usr/local/lib:$LD_LIBRARY_PATH As for the original problem, > ./tst_h_files: error while loading shared libraries: libhdf5_hl.so.7: > cannot open shared object file: No such file or directory > FAIL: tst_h_files I'm not sure why it's not found, if you installed it in /usr/lib. Some possible reasons are: - The installed library is 32-bit and you need a 64-bit library for the compiler you are using - There is another old instance of libhdf5_hl.so installed somewhere that has to be removed to get the linker to find the right one - The installation of HDF5 was incomplete or interrupted, so that the symbolic links needed in the /usr/lib directory to locate the right version of the library were not created and installed. For example, my installation has the following: lrwxrwxrwx 1 19 Dec 1 13:59 libhdf5_hl.so -> libhdf5_hl.so.7.0.2* lrwxrwxrwx 1 19 Dec 1 13:59 libhdf5_hl.so.7 -> libhdf5_hl.so.7.0.2* -rwxr-xr-x 1 335559 Dec 1 13:59 libhdf5_hl.so.7.0.2* - The permissions or owner on the library are wrong, so that you can't access it ... There are probably other possibilities as well, but I can't tell from the information provided. You might try address@hidden or even Intel support to determine what the root of the problem is, if it's not one of the above guesses ... --Russ Russ Rew UCAR Unidata Program address@hidden http://www.unidata.ucar.edu Ticket Details =================== Ticket ID: QGH-450146 Department: Support netCDF Priority: Normal Status: Closed
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