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

[Satish Balay]

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
> >>> >
> >>>
> >>>
>