Problem in sudo apt-get after installing zlib-1.2.11 using Intel compilers: libimf.so cannot open shared object file

Problem in sudo apt-get after installing zlib-1.2.11 using Intel compilers: libimf.so cannot open shared object file

Hi,

I have installed openmpi-3.0 with Intel compilers (v 17.0 from Intel Parallel Studio XE).

Then I am trying to install zlib-1.2.11 with mpicc. The configure command I use is $CC=/home/shreeja/build/openmpi-3.0.0-INTEL/bin/mpicc ./configure. Both "make check" and "make" worked fine. I had to do $ sudo make install  for access to /usr/local/.  All zlib libraries, includes are created successfully in /usr/local/

But afterwards, when I try doing $sudo apt-get update, I get this error: "apt-get: error while loading shared libraries: libimf.so: cannot open shared object file: No such file or directory". This error, of course goes away when I "$sudo make uninstall" zlib. I am giving the outputs of ldd on apt-get before and after zlib installation. Also pasting my $PATH and $LD_LIBRARY_PATH variables if needed. I am on a freshly installed Ubuntu 16.04 distro.

What can I do to compile zlib using parallel Intel compilers without affecting other programs? I have been trying for a long time now and I'm not very conversant with shared/static libraries and linking etc at this moment (if at all that is the problem). I need this step to be correct so I can continue to install HDF5 and then NetCDF in parallel. 

Thanks for any help anyone can provide,

Shreeja

$ldd /usr/bin/apt-get (before zlib install)

linux-vdso.so.1 =>  (0x00007fffcd0f8000)

libapt-pkg.so.5.0 => /usr/lib/x86_64-linux-gnu/libapt-pkg.so.5.0 (0x00007f01eee92000)

libapt-private.so.0.0 => /usr/lib/x86_64-linux-gnu/libapt-private.so.0.0 (0x00007f01eec3f000)

libstdc++.so.6 => /usr/lib/x86_64-linux-gnu/libstdc++.so.6 (0x00007f01ee8bd000)

libgcc_s.so.1 => /lib/x86_64-linux-gnu/libgcc_s.so.1 (0x00007f01ee6a7000)

libc.so.6 => /lib/x86_64-linux-gnu/libc.so.6 (0x00007f01ee2dd000)

libdl.so.2 => /lib/x86_64-linux-gnu/libdl.so.2 (0x00007f01ee0d9000)

libresolv.so.2 => /lib/x86_64-linux-gnu/libresolv.so.2 (0x00007f01edebe000)

libz.so.1 => /lib/x86_64-linux-gnu/libz.so.1 (0x00007f01edca4000)

libbz2.so.1.0 => /lib/x86_64-linux-gnu/libbz2.so.1.0 (0x00007f01eda94000)

liblzma.so.5 => /lib/x86_64-linux-gnu/liblzma.so.5 (0x00007f01ed872000)

liblz4.so.1 => /usr/lib/x86_64-linux-gnu/liblz4.so.1 (0x00007f01ed65a000)

libm.so.6 => /lib/x86_64-linux-gnu/libm.so.6 (0x00007f01ed351000)

/lib64/ld-linux-x86-64.so.2 (0x00007f01ef412000)

 

$ldd /usr/bin/apt-get (after zlib install)

linux-vdso.so.1 =>  (0x00007ffd70ffd000)

libapt-pkg.so.5.0 => /usr/lib/x86_64-linux-gnu/libapt-pkg.so.5.0 (0x00007f75dd35b000)

libapt-private.so.0.0 => /usr/lib/x86_64-linux-gnu/libapt-private.so.0.0 (0x00007f75dd108000)

libstdc++.so.6 => /usr/lib/x86_64-linux-gnu/libstdc++.so.6 (0x00007f75dcd86000)

libgcc_s.so.1 => /lib/x86_64-linux-gnu/libgcc_s.so.1 (0x00007f75dcb70000)

libc.so.6 => /lib/x86_64-linux-gnu/libc.so.6 (0x00007f75dc7a6000) 

libdl.so.2 => /lib/x86_64-linux-gnu/libdl.so.2 (0x00007f75dc5a2000)

libresolv.so.2 => /lib/x86_64-linux-gnu/libresolv.so.2 (0x00007f75dc387000)

libz.so.1 => /usr/local/lib/libz.so.1 (0x00007f75dc167000)

libbz2.so.1.0 => /lib/x86_64-linux-gnu/libbz2.so.1.0 (0x00007f75dbf57000)

liblzma.so.5 => /lib/x86_64-linux-gnu/liblzma.so.5 (0x00007f75dbd35000)

liblz4.so.1 => /usr/lib/x86_64-linux-gnu/liblz4.so.1 (0x00007f75dbb1d000)

libm.so.6 => /lib/x86_64-linux-gnu/libm.so.6 (0x00007f75db814000)

/lib64/ld-linux-x86-64.so.2 (0x00007f75dd8db000)

libimf.so => /opt/intel/lib/intel64/libimf.so (0x00007f75db328000)

libsvml.so => /opt/intel/lib/intel64/libsvml.so (0x00007f75da412000)

libirng.so => /opt/intel/lib/intel64/libirng.so (0x00007f75da08b000)

libintlc.so.5 => /opt/intel/lib/intel64/libintlc.so.5 (0x00007f75d9e21000)

 

$LD_LIBRARY_PATH=/usr/local/lib:/opt/intel/compilers_and_libraries_2017.0.098/linux/mpi/intel64/lib/:/opt/intel/lib/intel64/:/usr/local/lib:/usr/lib/x86_64-linux-gnu/:/opt/intel/compilers_and_libraries_2017.0.098/linux/mpi/intel64/lib:/opt/intel/compilers_and_libraries_2017.0.098/linux/mpi/mic/lib:/opt/intel/compilers_and_libraries_2017.0.098/linux/compiler/lib/intel64:/opt/intel/compilers_and_libraries_2017.0.098/linux/compiler/lib/intel64_lin:/opt/intel/compilers_and_libraries_2017.0.098/linux/mpi/intel64/lib:/opt/intel/compilers_and_libraries_2017.0.098/linux/mpi/mic/lib:/opt/intel/compilers_and_libraries_2017.0.098/linux/ipp/lib/intel64:/opt/intel/compilers_and_libraries_2017.0.098/linux/compiler/lib/intel64:/opt/intel/compilers_and_libraries_2017.0.098/linux/mkl/lib/intel64:/opt/intel/compilers_and_libraries_2017.0.098/linux/tbb/lib/intel64/gcc4.7:/opt/intel/debugger_2017/iga/lib:/opt/intel/debugger_2017/libipt/intel64/lib:/opt/intel/compilers_and_libraries_2017.0.098/linux/daal/lib/intel64_lin:/opt/intel/compilers_and_libraries_2017.0.098/linux/daal/../tbb/lib/intel64_lin/gcc4.4

 

$PATH=/home/shreeja/build/netcdf/:/home/shreeja/build/openmpi-3.0.0-INTEL/bin:/opt/intel/impi/2017.0.098/intel64/bin:/opt/intel/compilers_and_libraries_2017.0.098/linux/bin/intel64/:/opt/intel/compilers_and_libraries_2017.0.098/linux/mpi/intel64/bin/:/opt/intel/impi/2017.0.098/intel64/bin/:/home/shreeja/build/lammps-30Jul16/src:/home/shreeja/build/xcrysden-1.5.60-bin-shared:/home/shreeja/build/netcdf-4.4.1.1:/home/shreeja/.local/bin:/home/shreeja/build/:/usr/local/bin:/opt/intel/compilers_and_libraries_2017.0.098/linux/mpi/intel64/bin:/opt/intel/compilers_and_libraries_2017.0.098/linux/bin/intel64:/opt/intel/compilers_and_libraries_2017.0.098/linux/mpi/intel64/bin:/opt/intel/debugger_2017/gdb/intel64_mic/bin:/home/shreeja/bin:/home/shreeja/.local/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin

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