[petsc-users] problems with petsc4py on M1 mac when configuring PETSc

Fri Apr 8 08:36:36 CDT 2022

Here it is attached:

On Fri, Apr 8, 2022 at 11:11 AM Satish Balay <balay at mcs.anl.gov> wrote:

> This is strange. We have a successful build on M1 - for ex:
> https://gitlab.com/petsc/petsc/-/jobs/2308081220
>
> Can you send corresponding configure.log?
>
> Satish
>
> On Fri, 8 Apr 2022, Veronika Ulanova wrote:
>
> > To get this error i run the following commands:
> >
> > 1.
> >
> > *➜ * *petsc **git:(**release**)** ✗ *./configure --with-cc=gcc
> > --with-cxx=g++ --with-petsc4py=1 --with-fc=gfortran --download-mpich
> > --download-fblaslapack
> >
> > *➜ * *petsc **git:(**release**)** ✗ *   make
> > PETSC_DIR=/Users/veronikaulanova/Documents/documents/Oxford_work/petsc
> > PETSC_ARCH=arch-darwin-c-debug all
> >
> > On Fri, Apr 8, 2022 at 10:41 AM Veronika Ulanova <19veronika97 at gmail.com
> >
> > wrote:
> >
> > > I pulled the updated repo but now I get a different error also related
> to
> > > architecture:
> > >
> > > ld: file not found: @rpath/libgcc_s.1.1.dylib for architecture arm64
> > >
> > > clang: error: linker command failed with exit code 1 (use -v to see
> > > invocation)
> > >
> > > error: command
> > >
> '/Users/veronikaulanova/Documents/documents/Oxford_work/petsc/arch-darwin-c-debug/bin/mpicc'
> > > failed with exit code 1
> > >
> > > **************************ERROR*************************************
> > >
> > > Error building petsc4py.
> > >
> > > ********************************************************************
> > >
> > > make[2]: *** [petsc4pybuild] Error 1
> > >
> > > ***************************ERROR**************************************
> > >
> > > *  Error during compile, check
> arch-darwin-c-debug/lib/petsc/conf/make.log*
> > >
> > > *  Send it and arch-darwin-c-debug/lib/petsc/conf/configure.log to
> > > petsc-maint at mcs.anl.gov <petsc-maint at mcs.anl.gov>*
> > >
> > > **********************************************************************
> > >
> > >
> > > Any idea about this one? Thank you
> > >
> > > On Fri, Apr 8, 2022 at 10:09 AM Veronika Ulanova <
> 19veronika97 at gmail.com>
> > > wrote:
> > >
> > >> Hello Satish,
> > >>
> > >> By the repo you mean the main PETSc repository?
> > >>
> > >> Thank you, Veronika
> > >>
> > >> On Fri, Apr 8, 2022 at 9:49 AM Satish Balay <balay at mcs.anl.gov>
> wrote:
> > >>
> > >>> A fix for M1 was recently pushed to the git repo.
> > >>>
> > >>> Can you try using it [with either release or main branches] - and
> see if
> > >>> that works?
> > >>>
> > >>> Satish
> > >>>
> > >>>
> > >>>
> > >>> On Fri, 8 Apr 2022, Veronika Ulanova wrote:
> > >>>
> > >>> > Hi,
> > >>> >
> > >>> > I have been trying to configure the petsc4py package along with my
> > >>> PETSc
> > >>> > installation for my research. I have searched for solutions on the
> > >>> internet
> > >>> > but there was no luck, this is the error I get when I am trying to
> > >>> > configure PETSC and use it to run examples of code that utilise the
> > >>> > petsc4py package...
> > >>> >
> > >>> >
> > >>> >
> > >>> >  File
> > >>> >
> > >>>
> "/Users/veronikaulanova/Documents/documents/Oxford_work/petsc/arch-darwin-c-debug/lib/petsc4py/PETSc.py",
> > >>> > line 3, in <module>
> > >>> >
> > >>> >     PETSc = ImportPETSc(ARCH)
> > >>> >
> > >>> >   File
> > >>> >
> > >>>
> "/Users/veronikaulanova/Documents/documents/Oxford_work/petsc/arch-darwin-c-debug/lib/petsc4py/lib/__init__.py",
> > >>> > line 29, in ImportPETSc
> > >>> >
> > >>> >     return Import('petsc4py', 'PETSc', path, arch)
> > >>> >
> > >>> >   File
> > >>> >
> > >>>
> "/Users/veronikaulanova/Documents/documents/Oxford_work/petsc/arch-darwin-c-debug/lib/petsc4py/lib/__init__.py",
> > >>> > line 73, in Import
> > >>> >
> > >>> >     module = import_module(pkg, name, path, arch)
> > >>> >
> > >>> >   File
> > >>> >
> > >>>
> "/Users/veronikaulanova/Documents/documents/Oxford_work/petsc/arch-darwin-c-debug/lib/petsc4py/lib/__init__.py",
> > >>> > line 58, in import_module
> > >>> >
> > >>> >     with f: return imp.load_module(fullname, f, fn, info)
> > >>> >
> > >>> >   File "/opt/homebrew/Cellar/python at 3.9
> > >>>
> /3.9.10/Frameworks/Python.framework/Versions/3.9/lib/python3.9/imp.py",
> > >>> > line 242, in load_module
> > >>> >
> > >>> >     return load_dynamic(name, filename, file)
> > >>> >
> > >>> >   File "/opt/homebrew/Cellar/python at 3.9
> > >>>
> /3.9.10/Frameworks/Python.framework/Versions/3.9/lib/python3.9/imp.py",
> > >>> > line 342, in load_dynamic
> > >>> >
> > >>> >     return _load(spec)
> > >>> >
> > >>> > ImportError:
> > >>> >
> > >>>
> dlopen(/Users/veronikaulanova/Documents/documents/Oxford_work/petsc/arch-darwin-c-debug/lib/petsc4py/lib/arch-darwin-c-debug/
> > >>> > PETSc.cpython-39-darwin.so <http://petsc.cpython-39-darwin.so/>,
> 2):
> > >>> no
> > >>> > suitable image found.  Did find:
> > >>> >
> > >>> >
> > >>>
> /Users/veronikaulanova/Documents/documents/Oxford_work/petsc/arch-darwin-c-debug/lib/petsc4py/lib/arch-darwin-c-debug/
> > >>> > PETSc.cpython-39-darwin.so <http://petsc.cpython-39-darwin.so/>:
> > >>> mach-o,
> > >>> > but wrong architecture
> > >>> >
> > >>> >
> > >>>
> /Users/veronikaulanova/Documents/documents/Oxford_work/petsc/arch-darwin-c-debug/lib/petsc4py/lib/arch-darwin-c-debug/
> > >>> > PETSc.cpython-39-darwin.so <http://petsc.cpython-39-darwin.so/>:
> > >>> stat()
> > >>> > failed with errno=25
> > >>> >
> > >>> >
> > >>> > As you can see I am using an M1 mac and therefore that causes the
> > >>> petsc4py
> > >>> > package to give me an error (highlighted above), but do you have
> any
> > >>> idea
> > >>> > of how I can solve it or why it is even there? I know that the new
> M1
> > >>> has a
> > >>> > different architecture to intel macs but I have no idea of where to
> > >>> > start with fixing this or how to make it work. Any help would be
> much
> > >>> > appreciated, thank you in advance.
> > >>> >
> > >>> > Kind Regards, Veronika
> > >>> >
> > >>>
> > >>>
> >
>
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