Dear David,

I installed python 3.7.0 using the Archer script (slightly modified) and the installation procedure did succeed.

Nevertheless, when trying to import firedrake, I get the following error :

Python 3.7.0 (default, Oct 15 2020, 11:45:50)
[GCC 6.3.0 20170516] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import firedrake
--------------------------------------------------------------------------
It looks like orte_init failed for some reason; your parallel process is
likely to abort. There are many reasons that a parallel process can
fail during orte_init; some of which are due to configuration or
environment problems. This failure appears to be an internal failure;
here's some additional information (which may only be relevant to an
Open MPI developer):

setting topology failed
--> Returned value Error (-1) instead of ORTE_SUCCESS
--------------------------------------------------------------------------
--------------------------------------------------------------------------
It looks like orte_init failed for some reason; your parallel process is
likely to abort. There are many reasons that a parallel process can
fail during orte_init; some of which are due to configuration or
environment problems. This failure appears to be an internal failure;
here's some additional information (which may only be relevant to an
Open MPI developer):

orte_ess_init failed
--> Returned value Error (-1) instead of ORTE_SUCCESS
--------------------------------------------------------------------------
--------------------------------------------------------------------------
It looks like MPI_INIT failed for some reason; your parallel process is
likely to abort. There are many reasons that a parallel process can
fail during MPI_INIT; some of which are due to configuration or environment
problems. This failure appears to be an internal failure; here's some
additional information (which may only be relevant to an Open MPI
developer):

ompi_mpi_init: ompi_rte_init failed
--> Returned "Error" (-1) instead of "Success" (0)
--------------------------------------------------------------------------
*** An error occurred in MPI_Init_thread
*** on a NULL communicator
*** MPI_ERRORS_ARE_FATAL (processes in this communicator will now abort,
*** and potentially your MPI job)
[machineName:31007] Local abort before MPI_INIT completed completed successfully, but am not able to aggregate error messages, and not able to guarantee that all other processes were killed!

It clearly comes from openMPI but I do not see why it happens since I can run other mpi processes (like "mpirun -n2 ls").

Any help would be appreciated.

Nicolas

Le jeu. 15 oct. 2020 à 11:32, Karin&NiKo <niko.karin@gmail.com> a écrit :

Thank you very much for the information David. I will install by hand a specific version of python.
I also notice that you have the chance that your supercomputer benefits from an internet access! The supercomputers I am using do not have this privilege!
Thanks again,
Nicolas

Le jeu. 15 oct. 2020 à 10:44, Ham, David A <david.ham@imperial.ac.uk> a écrit :

Hi Nicolas,

Python 3.6 is indeed a hard requirement. Firedrake uses f strings which aren’t part of Python 3.5 so you’ll get syntax errors if you use 3.5. If you don’t have root on a machine then it’s fairly simple to just build Python from source, and in fact that’s what we do on the UK national supercomputer. Python provide instructions for doing this: https://docs.python.org/3/using/unix.html Our Python build script for ARCHER, which might be a useful reference but does contain a lot of system-specific details, is here: https://github.com/firedrakeproject/firedrake-archer/blob/master/build_python3.7_archer.sh

Regards,

David

From: <firedrake-bounces@imperial.ac.uk> on behalf of Karin&NiKo <niko.karin@gmail.com>
Date: Thursday, 15 October 2020 at 09:33
To: Lawrence Mitchell <wence@gmx.li>
Cc: firedrake <firedrake@imperial.ac.uk>
Subject: Re: [firedrake] Troubles when trying to update firedrake

And an extra question : do you have some experience on how to set-up a python version (say 3.6.5) on a computer on which you do not have root privileges that could be used in roder to build firedrake?

Le jeu. 15 oct. 2020 à 08:53, Karin&NiKo <niko.karin@gmail.com> a écrit :

Mmm... No it does not help. I see that python3.5.3 is used in my firedrake install since it is the default python3 version on my computer.

Is python3.6 *really* mandatory?

Nicolas

Le mer. 14 oct. 2020 à 18:42, Lawrence Mitchell <wence@gmx.li> a écrit :

> On 14 Oct 2020, at 15:49, Karin&NiKo <niko.karin@gmail.com> wrote:
>
> Dear Firedrakers,
>
> I installed firedrake with the following options few months ago :
> python3 firedrake-install --disable-ssh --mpiexec mpirun.openmpi --mpicc mpicc.openmpi --mpicxx mpicxx.openmpi --mpif90 mpif90.openmpi
>
> I am now trying to update the code. So I am activating the virtualenv and I run : firedrake-update
> I then get the error :
> Running firedrake-update --verbose
> Traceback (most recent call last):
> File "firedrake-update", line 1254, in <module>
> mpiexec_loc = shutil.which(args.mpiexec)
> AttributeError: 'Namespace' object has no attribute 'mpiexec'

This error is that the "args" object has no "mpiexec" attribute. I'm not sure how that happens.

Does it help to try and recover from a broken update script following the advice here:

https://www.firedrakeproject.org/download.html#recovering-from-a-broken-installation-script

Lawrence