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

[Veronika Ulanova]

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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