[firedrake] Configure error on ARCHER

[Florian Rathgeber]

On 02/01/15 11:16, Jacobs, Christian T wrote:
> Hi Florian,
> 
> Happy New Year.
> 
> It turns out that I was actually using a different script to the one here: /work/y07/y07/fdrake/petsc/reconfigure-cray-gnu-shared.py. When I use the /work/y07/y07/fdrake/petsc/reconfigure-cray-gnu-shared.py script, the configuration is successful (https://gist.github.com/ctjacobs/508c195437304afdb65e). However, "make PETSC_DIR=/work/n01/n01/ctjacobs//build_new/petsc PETSC_ARCH=cray-gnu-shared all" then fails with a "No rule to make target" error: https://gist.github.com/ctjacobs/dbcbcb07d6f48b837ad0 . Any ideas? Note that this is using an up-to-date download of https://bitbucket.org/mapdes/petsc/get/firedrake.tar.bz2, and not a clone of https://bitbucket.org/petsc/petsc.git.

Yes, reconfigure-cray-gnu-shared.py is the one to use. For that failure
I'd need to see make.log.

I've also given it another go and had to go down to 12 build threads
(have updated the reconfigure script). PETSc builds, but petsc4py does
not, it seems the DMPlexDistribute signature has changed:

src/petsc4py.PETSc.c:202625:47: error: too many arguments to function
'DMPlexDistribute'
   __pyx_t_4 =
__pyx_f_8petsc4py_5PETSc_CHKERR(DMPlexDistribute(__pyx_v_self->__pyx_base.dm,
__pyx_v_cpart, __pyx_v_coverlap, (&__pyx_v_pointsf->sf), (&__pyx_v
_pardm))); if (unlikely(__pyx_t_4 == -1)) {__pyx_filename = __pyx_f[40];
__pyx_lineno = 488; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
                                               ^
In file included from /work/y07/y07/fdrake/petsc/include/petsc.h:16:0,
                 from src/petsc4py.PETSc.c:343,
                 from src/PETSc.c:3:
/work/y07/y07/fdrake/petsc/include/petscdmplex.h:185:29: note: declared here
 PETSC_EXTERN PetscErrorCode DMPlexDistribute(DM, PetscInt, PetscSF*, DM*);

Michael, Lawrence, ideas?

Florian

> Cheers,
> Christian
> ________________________________________
> From: firedrake-bounces at imperial.ac.uk [firedrake-bounces at imperial.ac.uk] on behalf of Florian Rathgeber [florian.rathgeber at imperial.ac.uk]
> Sent: 01 January 2015 09:31
> To: firedrake
> Subject: Re: [firedrake] Configure error on ARCHER
> 
> On 31/12/14 16:22, Jacobs, Christian T wrote:
>> I'm trying to build an up-to-date version of PETSc on ARCHER. I'm using the script in the Firedrake petsc directory for configuring: /work/y07/y07/fdrake/petsc/reconfigure-cray-gnu-shared.py and the following steps:
>>
>> cd $WORK/build_new/petsc
>> source ~/firedrake.env
>> python reconfigure-cray-gnu-shared.py
>>
>> firedrake.env contains:
>>
>> module unload PrgEnv-cray
>> module load PrgEnv-gnu
>> module unload python
>> module load anaconda
>>
>> # Add fdrake module path
>> export FDRAKE_DIR=/work/y07/y07/fdrake
>> module use $FDRAKE_DIR/modules
>>
>> # Load build environment
>> module load fdrake-build-env
>> module load fdrake-python-env
>>
>> export PETSC_ARCH=cray-gnu-shared
>> export PETSC_DIR=$WORK/build_new/petsc
>>
>> The configuration step fails with a segmentation fault when making 'ml'. Has anyone else encountered this issue? Does the configuration script need updating?
>> output_configure.log: https://gist.github.com/ctjacobs/8611d07eae5dfb1f39f2
> 
> I would need configure.log to be able to say anything. Afaik no one has
> tried configuring with ml on ARCHER, so it may work with our reconfigure
> script.
> 
> Happy New Year!
> 
> Florian

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