[petsc-users] PETSc configuration error on macOS Monterey with Intel oneAPI

[Danyang Su]

Hi Samar,

 

Yes, with mpich, there is no such error. I will just use this configuration for now. 

 

Thanks,

 

Danyang

 

From: Samar Khatiwala <samar.khatiwala at earth.ox.ac.uk>
Date: Thursday, January 13, 2022 at 1:16 AM
To: Danyang Su <danyang.su at gmail.com>
Cc: PETSc <petsc-users at mcs.anl.gov>
Subject: Re: [petsc-users] PETSc configuration error on macOS Monterey with Intel oneAPI

 

Hi Danyang,

 

Just to reiterate, the presence of -Wl,-flat_namespace *is* the problem. I got rid of it by configuring mpich with --enable-two-level-namespace. I reported this problem to the PETSc 

folks a few weeks ago and they were going to patch MPICH.py (under config/BuildSystem/config/packages) to pass this flag. So you could try configuring with —download-mpich 

(or build your own mpich, which is pretty straightforward). If you’re wedded to openmpi, you could patch up OpenMPI.py yourself (maybe --enable-two-level-namespace is called 

something else for openmpi).

 

Best,

 

Samar



On Jan 13, 2022, at 6:01 AM, Danyang Su <danyang.su at gmail.com> wrote:

 

Hi Samar,

 

Thanks for your suggestion. Unfortunately, it does not work. I checked the mpif90 wrapper and the option "-Wl,-flat_namespace” is present. 

 

(base) ➜  bin ./mpif90 -show

ifort -I/Users/danyangsu/Soft/PETSc/petsc-3.16.3/macos-intel-dbg/include -Wl,-flat_namespace -Wl,-commons,use_dylibs -I/Users/danyangsu/Soft/PETSc/petsc-3.16.3/macos-intel-dbg/lib -L/Users/danyangsu/Soft/PETSc/petsc-3.16.3/macos-intel-dbg/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi

 

Thanks anyway,

 

Danyang

From: Samar Khatiwala <samar.khatiwala at earth.ox.ac.uk>
Date: Wednesday, January 12, 2022 at 2:01 PM
To: Danyang Su <danyang.su at gmail.com>
Cc: PETSc <petsc-users at mcs.anl.gov>
Subject: Re: [petsc-users] PETSc configuration error on macOS Monterey with Intel oneAPI

 

Hi Danyang,

 

I had trouble configuring PETSc on MacOS Monterey with ifort when using mpich (which I was building myself). I tracked it down to an errant "-Wl,-flat_namespace” 

option in the mpif90 wrapper. I rebuilt mpich with the "--enable-two-level-namespace” configuration option and the problem went away. I don’t know if there’s a similar 

issue with openmpi but you could check the corresponding mpif90 wrapper (mpif90 -show) whether "-Wl,-flat_namespace” is present or not. If so, perhaps passing 

"--enable-two-level-namespace” to PETSc configure might fix the problem (although I don’t know how you would set this flag *just* for building openmpi).

 

Samar




On Jan 12, 2022, at 9:41 PM, Danyang Su <danyang.su at gmail.com> wrote:

 

Hi All,

I got an error in PETSc configuration on macOS Monterey with Intel oneAPI using the following options:

 

./configure --with-cc=icc --with-cxx=icpc --with-fc=ifort --with-blas-lapack-dir=/opt/intel/oneapi/mkl/2022.0.0/lib/ --with-debugging=1 PETSC_ARCH=macos-intel-dbg --download-mumps --download-parmetis --download-metis --download-hypre --download-superlu --download-hdf5=yes --download-openmpi

 

Error with downloaded OpenMPI: Cannot compile/link FC with /Users/danyangsu/Soft/PETSc/petsc-3.16.3/macos-intel-dbg/bin/mpif90.

 

Any suggestions for that?

 

There is no problem if I use GNU compiler and MPICH.

 

Thanks,

 

Danyang

 

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