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

Fri Apr 8 08:37:25 CDT 2022

Thank you Blaise Bourdin, will try that !

On Fri, Apr 8, 2022 at 2:36 PM Veronika Ulanova <19veronika97 at gmail.com>
wrote:

> 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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