[petsc-users] [Ext] Re: configure error

[Kun Jiao]

Thanks.  Let me fix that. Try it again.


From: Matthew Knepley <knepley at gmail.com>
Sent: Monday, June 15, 2020 12:25 PM
To: Kun Jiao <KJiao at slb.com>
Cc: petsc-users at mcs.anl.gov
Subject: [Ext] Re: [petsc-users] configure error

On Mon, Jun 15, 2020 at 12:13 PM Kun Jiao via petsc-users <petsc-users at mcs.anl.gov<mailto:petsc-users at mcs.anl.gov>> wrote:
Hi,

Lately I run into a configure error with intel compiler+openmpi+lapack,

Error message as:
===============================================================================                                                                                             TESTING: checkLib from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:114)                                                                     *******************************************************************************
         UNABLE to CONFIGURE with GIVEN OPTIONS    (see configure.log for details):
-------------------------------------------------------------------------------
You set a value for --with-blaslapack-lib=<lib>, but ['-L/mnt/disks/intel-2018-3-222-blade-runtime-env-2018-1-07-08-2018-132838/2019.3/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64', '-Wl,', '--no-as-needed', '-lmkl_intel_ilp64', '-lmkl_intel_thread', '-lmkl_core', '-liomp5', '-lpthread', '-lm', '-ldl'] cannot be used
*******************************************************************************

You input looks wrong:

Executing: icc  -o /tmp/petsc-srHpJ6/config.libraries/conftest    -fPIC  -wd1572 -Ofast -xHost /tmp/petsc-srHpJ6/config.libraries/conftest.o  -L/mnt/disks/intel-2018-3-222-blade-runtime-env-2018-1-07-08-2018-132838/2019.3/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64 -Wl, --no-as-needed -lmkl_intel_ilp64 -lmkl_intel_thread -lmkl_core -liomp5 -lpthread -lm -ldl -lstdc++ -ldl -Wl,-rpath,/mnt/disks/intel-2018-3-222-blade-runtime-env-2018-1-07-08-2018-132838/2019.3/intel/compilers_and_libraries_2019.3.199/linux/mpi/intel64/libfabric/lib -L/mnt/disks/intel-2018-3-222-blade-runtime-env-2018-1-07-08-2018-132838/2019.3/intel/compilers_and_libraries_2019.3.199/linux/mpi/intel64/libfabric/lib -Wl,-rpath,/mnt/disks/intel-2018-3-222-blade-runtime-env-2018-1-07-08-2018-132838/2019.3/intel/compilers_and_libraries_2019.3.199/linux/compiler/lib/intel64_lin -L/mnt/disks/intel-2018-3-222-blade-runtime-env-2018-1-07-08-2018-132838/2019.3/intel/compilers_and_libraries_2019.3.199/linux/compiler/lib/intel64_lin -Wl,-rpath,/mnt/disks/intel-2018-3-222-blade-runtime-env-2018-1-07-08-2018-132838/2019.3/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64_lin -L/mnt/disks/intel-2018-3-222-blade-runtime-env-2018-1-07-08-2018-132838/2019.3/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64_lin -Wl,-rpath,/opt/2019.3/compilers_and_libraries_2019.3.199/linux/compiler/lib/intel64_lin -L/opt/2019.3/compilers_and_libraries_2019.3.199/linux/compiler/lib/intel64_lin -Wl,-rpath,/opt/gcc-4.9.2/lib/gcc/x86_64-unknown-linux-gnu/4.9.2 -L/opt/gcc-4.9.2/lib/gcc/x86_64-unknown-linux-gnu/4.9.2 -Wl,-rpath,/opt/gcc-4.9.2/lib64 -L/opt/gcc-4.9.2/lib64 -Wl,-rpath,/opt/gcc-4.9.2/lib -L/opt/gcc-4.9.2/lib -lifport -lifcoremt_pic -limf -lsvml -lm -lipgo -lirc -lpthread -lgcc_s -lirc_s -lstdc++ -ldl
Possible ERROR while running linker: exit code 256
stderr:
icc: command line warning #10006: ignoring unknown option '-fno-as-needed'
ld: cannot find -lmkl_intel_ilp64

  Thanks,

    Matt

Here is my configure parameters:

./configure --configModules=PETSc.Configure --optionsModule=config.compilerOptions --configModules=PETSc.Configure --optionsModule=config.compilerOptions PETSC_ARCH=linux-gnu-intel --with-precision=single --with-cc=icc --with-cxx=icc --with-fc=ifort --with-mpi-include=/opt/openmpi_4.0.3_intel2019.3/include --with-mpi-lib="-L/opt/openmpi_4.0.3_intel2019.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi" --with-blaslapack-include="/mnt/disks/intel-2018-3-222-blade-runtime-env-2018-1-07-08-2018-132838/2019.3/intel/compilers_and_libraries_2019.3.199/linux/mkl/include" --with-blaslapack-lib="-L/mnt/disks/intel-2018-3-222-blade-runtime-env-2018-1-07-08-2018-132838/2019.3/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64 -Wl, --no-as-needed -lmkl_intel_ilp64 -lmkl_intel_thread -lmkl_core -liomp5 -lpthread -lm -ldl" --with-scalapack-lib="-L/mnt/disks/intel-2018-3-222-blade-runtime-env-2018-1-07-08-2018-132838/2019.3/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64 -lmkl_scalapack_lp64 -lmkl_blacs_intelmpi_lp64" --with-scalapack-include=/mnt/disks/intel-2018-3-222-blade-runtime-env-2018-1-07-08-2018-132838/2019.3/intel/compilers_and_libraries_2019.3.199/linux/mkl/include --with-cmake=1 --prefix=/opt/petsc_3.10.4_intel2019.3 --known-endian=big --with-debugging=0 --COPTFLAGS=" -Ofast -xHost" --CXXOPTFLAGS=" -Ofast -xHost" --FOPTLAGS=" -Ofast -xHost" --with-x=0 --with-64-bit-indices

And configure.log attached.

Any suggestion will be great?

Regards,
Kun



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