Dear Satish,
I get the following when doing the ls:
[lanthale@daint103 mkl]$ ls
/opt/intel/compilers_and_libraries_2017.4.196/linux/mkl/lib/intel64/
libmkl_ao_worker.so libmkl_blacs_sgimpt_lp64.so
libmkl_intel_lp64.a libmkl_sequential.so
libmkl_avx2.so libmkl_blas95_ilp64.a
libmkl_intel_lp64.so libmkl_tbb_thread.a
libmkl_avx512_mic.so libmkl_blas95_lp64.a
libmkl_intel_thread.a libmkl_tbb_thread.so
libmkl_avx512.so libmkl_cdft_core.a
libmkl_intel_thread.so libmkl_vml_avx2.so
libmkl_avx.so libmkl_cdft_core.so
libmkl_lapack95_ilp64.a libmkl_vml_avx512_mic.so
libmkl_blacs_intelmpi_ilp64.a libmkl_core.a libmkl_lapack95_lp64.a
libmkl_vml_avx512.so
libmkl_blacs_intelmpi_ilp64.so libmkl_core.so
libmkl_mc3.so libmkl_vml_avx.so
libmkl_blacs_intelmpi_lp64.a libmkl_def.so libmkl_mc.so
libmkl_vml_cmpt.so
libmkl_blacs_intelmpi_lp64.so libmkl_gf_ilp64.a
libmkl_pgi_thread.a libmkl_vml_def.so
libmkl_blacs_openmpi_ilp64.a libmkl_gf_ilp64.so
libmkl_pgi_thread.so libmkl_vml_mc2.so
libmkl_blacs_openmpi_ilp64.so libmkl_gf_lp64.a
libmkl_rt.so libmkl_vml_mc3.so
libmkl_blacs_openmpi_lp64.a libmkl_gf_lp64.so
libmkl_scalapack_ilp64.a libmkl_vml_mc.so
libmkl_blacs_openmpi_lp64.so libmkl_gnu_thread.a
libmkl_scalapack_ilp64.so locale
libmkl_blacs_sgimpt_ilp64.a libmkl_gnu_thread.so libmkl_scalapack_lp64.a
libmkl_blacs_sgimpt_ilp64.so libmkl_intel_ilp64.a
libmkl_scalapack_lp64.so
libmkl_blacs_sgimpt_lp64.a libmkl_intel_ilp64.so libmkl_sequential.a
Cheers,
Samuel
On 04/24/2018 03:50 PM, Satish Balay wrote:
Executing: cc -o /tmp/petsc-tyd_Hm/config.libraries/conftest -O
/tmp/petsc-tyd_Hm/config.libraries/conftest.o
-Wl,-rpath,/opt/intel/compilers_and_libraries_2017.4.196/linux/mkl/lib/intel64
-L/opt/intel/compilers_and_libraries_2017.4.196/linux/mkl/lib/intel64
-lmkl_intel_lp64 -lmkl_sequential -lmkl_core -lpthread -lstdc++ -ldl
Possible ERROR while running linker: exit code 256
stderr:
/opt/intel/compilers_and_libraries_2017.4.196/linux/mkl/lib/intel64/libmkl_core.a(mkl_semaphore.o):
In function `mkl_serv_load_inspector':
mkl_semaphore.c:(.text+0x123): warning: Using 'dlopen' in statically linked
applications requires at runtime the shared libraries from the glibc version
used for linking
/opt/intel/compilers_and_libraries_2017.4.196/linux/mkl/lib/intel64/libmkl_core.a(dgetrs.o):
In function `mkl_lapack_dgetrs':
dgetrs_gen.f:(.text+0x224): undefined reference to `mkl_blas_dtrsm'
dgetrs_gen.f:(.text+0x2b1): undefined reference to `mkl_blas_dtrsm'
dgetrs_gen.f:(.text+0x2e7): undefined reference to `mkl_lapack_dlaswp'
<<<<<<<<
For some reason the compiler is picking up static version of MKL - instead of
shared libraries.
What do you have for:
ls /opt/intel/compilers_and_libraries_2017.4.196/linux/mkl/lib/intel64/
Satish
On Tue, 24 Apr 2018, Samuel Lanthaler wrote:
Dear Satish and Stefano,
Thank you for your answers. I believe I had initially tried to use the option
--with-blaslapack-dir=[...], instead of specifying lib and include directly.
But that gives me an error message:
*******************************************************************************
UNABLE to CONFIGURE with GIVEN OPTIONS (see configure.log for
details):
-------------------------------------------------------------------------------
You set a value for --with-blaslapack-dir=<dir>, but
/opt/intel/compilers_and_libraries_2017.4.196/linux/mkl cannot be used
*******************************************************************************
I attach the new configure.log. Do you think there is something wrong with the
mkl version that I'm trying to use? Or is it only related to petsc?
Cheers,
Samuel
On 04/24/2018 02:55 PM, Satish Balay wrote:
On Tue, 24 Apr 2018, Samuel Lanthaler wrote:
Hi there,
I was wondering if you could help me with the correct configuration of
PETSc-dev version on a cluster (https://www.cscs.ch/)? I'm not sure which
information would be useful to you, but basically the problem seems to be
in
correctly compiling it with intel compiler and the existing mkl library.
The pre-installed mkl version is
intel/17.0.4.196
I have tried various things and finally, I got it at least to compile with
the
following options (options chosen in reference to the mkl link advisor...):
./configure --with-fc=ftn --with-cc=cc --with-cxx=CC --with-debugging=0
--with-scalar-type=complex --download-scalapack --download-mumps=yes
--download-superlu --with-batch --known-mpi-shared-libraries=1
*--with-blaslapack-lib=*" ${MKLROOT}/lib/intel64/libmkl_blas95_lp64.a
${MKLROOT}/lib/intel64/libmkl_lapack95_lp64.a -Wl,--start-group
${MKLROOT}/lib/intel64/libmkl_intel_lp64.a
${MKLROOT}/lib/intel64/libmkl_sequential.a
${MKLROOT}/lib/intel64/libmkl_core.a -Wl,--end-group -lpthread -lm -ldl"
*--with-blaslapack-include*="[/opt/intel/compilers_and_libraries_2017.4.196/linux/mkl/include,/opt/intel/compilers_and_libraries_2017.4.196/linux/mkl/include/intel64/lp64]"
Can you remove the above 2 options [--with-blaslapack-lib,
--with-blaslapack-include] and use:
--with-blas-lapack-dir=${MKLROOT}
And see if you still have this problem?
Satish
--known-64-bit-blas-indices=0
After compilation, when trying to compile
/users/lanthale/petsc-git/src/snes/examples/tutorials/ex5f I get linking
errors (attached). Would anyone be able to help me out here? I really don't
have a good understanding of this.
I'm attaching the configuration.log file, as well as the linking errors
when
trying to compile ex5f.
Thank you very much in advance!
Best regards,
Samuel
