[firedrake] Configure error on ARCHER

[Jacobs, Christian T]

Thanks Florian. I've got a working build now.

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: 02 January 2015 14:46
To: firedrake
Subject: Re: [firedrake] Configure error on ARCHER

On 02/01/15 12:08, Florian Rathgeber wrote:
> 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?

Ignore that! I was on the wrong branch (master rather than firedrake).

Christian, I built successfully with /work/y07/y07/fdrake/build_petsc.sh

> 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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