[petsc-users] error with xlib

[Satish Balay]

This is very funky

>>>
Configure Options: --configModules=PETSc.Configure --optionsModule=config.compilerOptions --with-mpi-dir=/usr/local/Cellar/mpich/3.3.2 COPTFLAGS="-O2 -g  -Xpreprocessor -fopenmp -I"$(brew --prefix libomp)/include" -L"$(brew --prefix libomp)/lib -lomp"" CXXOPTFLAGS="-O2 -g -Xpreprocessor -fopenmp -I"$(brew --prefix libomp)/include" -L"$(brew --prefix libomp)/lib -lomp"" FOPTFLAGS="-O2 -g -Xpreprocessor -fopenmp -I"$(brew --prefix libomp)/include" -L"$(brew --prefix libomp)/lib -lomp"" --download-parmetis=1 --download-metis=1 --download-hypre=1 --download-triangle=1 --download-p4est=1 --download-zlib --with-x=0 --download-ctetgen --with-debugging=0 --download-hdf5=1 PETSC_ARCH=arch-macosx-gnu-O-omp --with-openmp=1 --with-log=0 --with-threadsafety --download-chaco
<<<

-I"$(brew --prefix libomp)/include" type options to configure doesn't make sense. You are using bash syntax here - and expecting configure to resolve it. Its best for your bash shell to evaluate this before passing this info to configure

Also --download-zlib isn't needed on OSX

Satish


On Mon, 13 Apr 2020, Mark Adams wrote:

> Now that I look at it, I see:
> 
> CFLAGS="-fstack-protector -fno-stack-check -Qunused-arguments -O2 -g
> -Xpreprocessor -fopenmp -I"$(brew --prefix libomp)/include" -L"$(brew
> --prefix libomp)/lib -lomp""
> prefix="/Users/markadams/Codes/petsc/arch-macosx-gnu-O-omp"
> 
> Note the two ". That does not look right. I use
> 
> 'COPTFLAGS=-O2 -g  -Xpreprocessor -fopenmp -I"$(brew --prefix
> libomp)/include" -L"$(brew --prefix libomp)/lib -lomp" ',
> 
> I know how to do stuff like:
> 
> '--with-blaslapack-lib=-L' + os.environ['OLCF_NETLIB_LAPACK_ROOT'] +
> '/lib64 -lblas -llapack'
> 
> Is there like and os.exec that I could use like this for my FLAGS?
> 
> 
> 
> On Mon, Apr 13, 2020 at 11:46 AM Matthew Knepley <knepley at gmail.com> wrote:
> 
> > On Mon, Apr 13, 2020 at 11:34 AM Mark Adams <mfadams at lbl.gov> wrote:
> >
> >> I get this error configuring zlib, osx, with OpenMP.
> >> Any ideas?
> >>
> >
> > This failed without output
> >
> > Executing: cd
> > /Users/markadams/Codes/petsc/arch-macosx-gnu-O-omp/externalpackages/zlib-1.2.11
> > && CC="/usr/local/Cellar/mpich/3.3.2/bin/mpicc" CFLAGS="-fstack-protector
> > -fno-stack-check -Qunused-arguments -O2 -g -Xpreprocessor -fopenmp
> > -I"$(brew --prefix libomp)/include" -L"$(brew --prefix libomp)/lib -lomp""
> > prefix="/Users/markadams/Codes/petsc/arch-macosx-gnu-O-omp" ./configure  &&
> > /usr/bin/make -j7 -l12.0 &&  /usr/bin/make install
> >
> > So execute each step in turn and see what fails.
> >
> >   Thanks,
> >
> >      Matt
> >
> >
> >> Thanks,
> >> Mark
> >>
> >
> >
> > --
> > What most experimenters take for granted before they begin their
> > experiments is infinitely more interesting than any results to which their
> > experiments lead.
> > -- Norbert Wiener
> >
> > https://www.cse.buffalo.edu/~knepley/
> > <http://www.cse.buffalo.edu/~knepley/>
> >
>